changeset 0:59ebf2c42c0e draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/volcanoplot commit 7cc1a05f2868f270bf5bdbbd4820ef6f69c9fc8d
author iuc
date Tue, 23 Oct 2018 06:57:26 -0400
parents
children 7b7303fa20e3
files static/images/volcano_plot.png test-data/input.tab test-data/labels.tab test-data/out.pdf test-data/out2.pdf volcanoplot.R volcanoplot.xml
diffstat 7 files changed, 16641 insertions(+), 0 deletions(-) [+]
line wrap: on
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Binary file static/images/volcano_plot.png has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/input.tab	Tue Oct 23 06:57:26 2018 -0400
@@ -0,0 +1,16407 @@
+Gene	log2FoldChange	pvalue	padj
+DOK6	0.51	1.861e-08	0.0003053
+TBX5	-2.129	5.655e-08	0.0004191
+SLC32A1	0.9003	7.664e-08	0.0004191
+IFITM1	-1.687	3.735e-06	0.006809
+NUP93	0.3659	3.373e-06	0.006809
+EMILIN2	1.534	2.976e-06	0.006809
+TPX2	-0.9974	2.097e-06	0.006809
+LAMA2	-1.425	2.39e-06	0.006809
+CAV2	-1.052	3.213e-06	0.006809
+TNN	-1.658	8.973e-06	0.01472
+POU3F4	1.181	1.062e-05	0.01584
+COL13A1	-1.647	1.394e-05	0.01592
+IFITM3	-1.61	1.202e-05	0.01592
+SHISA3	-1.477	1.31e-05	0.01592
+LOC285954	1.05	1.456e-05	0.01592
+VEPH1	1.137	2.211e-05	0.02267
+ARHGAP29	-1.526	3.675e-05	0.03547
+KIAA1755	-1.562	3.972e-05	0.0362
+LAMC3	-1.563	4.29e-05	0.03704
+ITM2A	-1.398	4.972e-05	0.04078
+DTHD1	1.54	5.594e-05	0.04371
+RBMS1	-0.9139	6.688e-05	0.04988
+CEBPD	-1.202	7.859e-05	0.05606
+DMBX1	-1.425	9.529e-05	0.06486
+PAPLN	-1.253	9.883e-05	0.06486
+ADM	-1.357	0.0001089	0.06872
+COL2A1	-1.187	0.0001424	0.07794
+HS3ST3A1	-1.004	0.0001388	0.07794
+DYSF	-1.03	0.0001425	0.07794
+PI16	1.495	0.0001297	0.07794
+CDC42EP5	-1.355	0.0001581	0.08146
+SLC12A8	-0.9425	0.0001589	0.08146
+ZNF391	-1.024	0.0001913	0.09512
+GALNTL2	1.075	0.0002298	0.1109
+C4orf45	1.288	0.0002472	0.1159
+KIF18B	-0.8849	0.0002551	0.1162
+KIF20A	-0.9505	0.0002972	0.1318
+PDE1B	1.053	0.0003356	0.1449
+BCAN	1.117	0.0003698	0.1477
+APLNR	-1.365	0.000378	0.1477
+CILP	-1.11	0.0003582	0.1477
+TEC	-1.373	0.0003701	0.1477
+KLF5	-0.8177	0.0004159	0.1578
+ACSS2	-0.5578	0.0004232	0.1578
+RAPGEF2	0.3371	0.0004513	0.1645
+C1orf51	-0.6451	0.0005237	0.1665
+IGF2-AS1	-1.235	0.0005835	0.1665
+RPLP0P2	-1.096	0.0005689	0.1665
+COTL1	-0.7376	0.0005886	0.1665
+MYO1D	-0.8454	0.0005529	0.1665
+CIAO1	0.2695	0.000522	0.1665
+POU3F3	0.6857	0.000588	0.1665
+CFLAR	-0.9694	0.0005598	0.1665
+BHLHE40	-1.127	0.0004785	0.1665
+PLSCR4	-1.317	0.0004978	0.1665
+HECW1	0.5135	0.0005373	0.1665
+KCNQ3	1.147	0.000483	0.1665
+TIMP1	-1.15	0.0005267	0.1665
+CAV1	-1.115	0.0006722	0.1869
+LTBP4	-0.8186	0.0006991	0.1912
+HDAC1	-0.4542	0.0007203	0.1937
+HSPG2	-1.218	0.0007963	0.1947
+CYR61	-1.102	0.0008071	0.1947
+MYOF	-1.194	0.0007397	0.1947
+COL4A1	-1.252	0.0007866	0.1947
+NMB	0.8677	0.0007872	0.1947
+ICAM1	-1.144	0.0007795	0.1947
+NOTCH3	-0.7585	0.0007529	0.1947
+MPPED2	0.5135	0.0008344	0.1984
+COL9A1	-0.9755	0.0008905	0.2087
+ACSF2	-1.142	0.0009448	0.2183
+KTN1	-0.3119	0.0009652	0.2199
+ITPR1	-1.118	0.00102	0.226
+PRPS2	-0.722	0.00101	0.226
+FAM180B	1.249	0.001146	0.2399
+POU2F3	-1.273	0.001114	0.2399
+COL5A2	-1.262	0.001155	0.2399
+ZSWIM3	0.438	0.001143	0.2399
+CADM2	0.643	0.001102	0.2399
+ARHGEF17	-0.5462	0.001214	0.2453
+SSC5D	-1.126	0.001229	0.2453
+NRN1	0.8605	0.001241	0.2453
+PLAT	-1.103	0.001226	0.2453
+SFXN2	-0.8373	0.00126	0.2456
+FMNL2	-0.2466	0.001276	0.2456
+ADAMTS3	-0.6153	0.001288	0.2456
+ADAMTS19	-1.199	0.001348	0.2543
+SH3BP1	-0.9641	0.001367	0.2548
+LEFTY2	-1.225	0.001414	0.2578
+EHBP1	0.3191	0.001414	0.2578
+UAP1L1	-1.113	0.001454	0.2622
+RAB27A	-1.073	0.001516	0.2702
+ZNF213	0.3028	0.001604	0.28
+TOMM34	-0.4213	0.001596	0.28
+PERP	-0.914	0.001672	0.2888
+OSMR	-1.226	0.001749	0.2988
+CDCA3	-0.7986	0.001911	0.3119
+GPR179	0.8394	0.001972	0.3119
+TMC6	-1.078	0.001977	0.3119
+STXBP5L	0.6711	0.001936	0.3119
+HSPA1L	0.8842	0.001851	0.3119
+PLIN2	-0.604	0.001866	0.3119
+GSN	-1.117	0.001977	0.3119
+F8A1	0.9911	0.00191	0.3119
+SLC27A6	-1.196	0.001998	0.3121
+COL4A2	-1.013	0.002192	0.3157
+WFDC1	-1.162	0.002149	0.3157
+DSEL	0.6867	0.002194	0.3157
+DOCK6	-0.8158	0.002172	0.3157
+MAN2B1	-0.4688	0.002099	0.3157
+NFKBIZ	-0.888	0.002132	0.3157
+OCIAD2	0.7605	0.002108	0.3157
+REST	-0.5478	0.002073	0.3157
+ANXA5	-0.8639	0.002075	0.3157
+TRIM13	0.3688	0.002254	0.3216
+ANLN	-0.7229	0.002306	0.3261
+AP1S3	-0.8107	0.002352	0.3271
+LOC100859930	0.9008	0.002343	0.3271
+STK17B	-0.887	0.00238	0.3281
+BHLHB9	0.4738	0.002441	0.3337
+IL1R1	-1.185	0.00248	0.3362
+CSDA	-0.7633	0.002833	0.35
+POSTN	-1.176	0.002706	0.35
+HHIPL1	0.8127	0.002742	0.35
+APBA2	0.4314	0.002752	0.35
+CBLN1	1.066	0.002768	0.35
+ALPK2	-1.108	0.002789	0.35
+NFATC2	-1.108	0.002726	0.35
+CN5H6.4	0.7852	0.002792	0.35
+ABHD14B	-1.03	0.002859	0.35
+COL8A1	-1.171	0.002841	0.35
+HCG11	-0.8357	0.002844	0.35
+RUNX2	-0.88	0.002632	0.35
+EPB41L2	-0.9145	0.002832	0.35
+COL11A1	-1.145	0.002903	0.3528
+PODN	-1.155	0.003085	0.3722
+NET1	-1.015	0.00311	0.3724
+IL13RA1	-1.106	0.003139	0.3731
+RNF207	-0.7995	0.003239	0.3798
+TRPM2	1.05	0.003246	0.3798
+SDF2L1	-0.4649	0.003298	0.3798
+SLCO2A1	-1.094	0.003293	0.3798
+DACT2	-1.06	0.00331	0.3798
+DCXR	-0.4101	0.003335	0.38
+BCAM	-0.8227	0.003423	0.3873
+FAM46B	-1.002	0.00347	0.39
+FOXL1	-1.136	0.003579	0.3965
+SMTN	-0.7131	0.003625	0.3965
+SLC6A1	0.7104	0.003616	0.3965
+YY2	-0.5988	0.003612	0.3965
+DEPDC1	-0.755	0.003704	0.3999
+HEPACAM2	1.116	0.003727	0.3999
+WBP5	-0.8485	0.003729	0.3999
+SPSB1	-1.05	0.003878	0.4105
+KIF23	-0.7154	0.003953	0.4105
+C1QL1	-1.072	0.003907	0.4105
+CBLN2	1.072	0.003934	0.4105
+LOC100505806	-1.069	0.003912	0.4105
+POU3F1	0.7912	0.004163	0.4116
+RGS8	0.9341	0.0043	0.4116
+GAD2	0.7494	0.004273	0.4116
+PKP2	-0.9689	0.004316	0.4116
+KIAA0564	-0.4253	0.004323	0.4116
+PIF1	-0.9292	0.004484	0.4116
+OR1F1	0.8391	0.004052	0.4116
+RRN3	0.3764	0.00431	0.4116
+CORO1A	0.4844	0.004098	0.4116
+CRISPLD2	-1.115	0.004242	0.4116
+TOP2A	-0.7962	0.004366	0.4116
+ANKRD12	0.3062	0.004161	0.4116
+DHDH	-0.811	0.004357	0.4116
+ZNF274	0.3354	0.004118	0.4116
+DPP4	-1.127	0.004023	0.4116
+TMEM169	0.7379	0.004108	0.4116
+CMTM8	-0.7701	0.004417	0.4116
+LAMP3	-0.9384	0.004515	0.4116
+SYNJ2	-0.9266	0.004504	0.4116
+DPY19L2P3	1.061	0.00448	0.4116
+TSC22D4	-0.5131	0.00443	0.4116
+AR	-0.5979	0.00436	0.4116
+LOC339862	-1.109	0.004578	0.415
+CCDC152	0.9749	0.004621	0.4165
+NQO2	-0.6663	0.004716	0.4228
+CMTM5	1.096	0.004868	0.4341
+SERPING1	-0.8202	0.004974	0.4411
+TLCD2	-0.9392	0.005095	0.4494
+ATXN7L3B	0.3532	0.005133	0.4503
+APOE	-0.9273	0.005183	0.4523
+GPC3	-1.073	0.005233	0.4542
+IRF1	-0.8166	0.00527	0.455
+GNG2	0.3508	0.005368	0.4611
+EPHX1	-0.5381	0.005794	0.4656
+CLEC2D	-0.8191	0.005714	0.4656
+PTPRB	-1.079	0.005753	0.4656
+NFATC4	-0.93	0.005692	0.4656
+LGALS3	-0.9472	0.005809	0.4656
+OTX2	0.8839	0.005746	0.4656
+UACA	-1.058	0.005562	0.4656
+HAPLN3	-0.9001	0.005753	0.4656
+MYO5B	-0.982	0.005461	0.4656
+PVRL3	-0.4554	0.005817	0.4656
+PRDM6	-1.068	0.005688	0.4656
+PDLIM7	-0.7154	0.005623	0.4656
+TSPYL4	0.3561	0.005811	0.4656
+CHRM2	0.9253	0.005564	0.4656
+PMEL	-1.007	0.005987	0.4666
+GLIPR1	-1.05	0.006001	0.4666
+NLRC5	-0.9957	0.005976	0.4666
+FAM117A	-0.4496	0.005934	0.4666
+FAM83D	-0.7423	0.006	0.4666
+C7	-1.072	0.005919	0.4666
+SERPINF1	-1.026	0.006158	0.4721
+PLEKHH2	-1.032	0.006134	0.4721
+GYPC	-1.042	0.006102	0.4721
+LAMB2	-0.5626	0.006196	0.4728
+SYNPO2	-1.065	0.006232	0.4734
+SLCO4C1	0.9821	0.006278	0.4746
+TNFAIP6	-1.011	0.006348	0.4777
+FKBP10	-0.7909	0.006391	0.4788
+LAMC1	-0.9224	0.006516	0.4827
+FAM150B	-1.066	0.006477	0.4827
+TM4SF1	-1.051	0.006532	0.4827
+PCK2	-0.9537	0.006608	0.4832
+ZNF732	-0.949	0.006608	0.4832
+SLC35D2	-0.8576	0.006626	0.4832
+NOTCH2NL	-0.517	0.006761	0.4867
+KRT19	-1.027	0.006764	0.4867
+PCDHGB7	1.014	0.006713	0.4867
+LOC100128787	0.9828	0.006919	0.4872
+PLXDC2	-0.554	0.00689	0.4872
+SLFN11	-1.06	0.006835	0.4872
+NEDD4L	0.3903	0.006904	0.4872
+SPATA2	0.3181	0.006851	0.4872
+CDCP1	-1.047	0.007063	0.4931
+USP53	-0.4552	0.007063	0.4931
+TRAF5	-0.9501	0.007369	0.4935
+PHYHIPL	0.4773	0.007331	0.4935
+A2M	-1.048	0.00719	0.4935
+C12orf34	0.596	0.007283	0.4935
+LOC255480	-0.9411	0.007153	0.4935
+LOC150622	0.9708	0.007286	0.4935
+LOC100130451	0.9622	0.007342	0.4935
+SNAI1	-1.023	0.00725	0.4935
+BCL2L13	0.1979	0.007251	0.4935
+DSP	-0.9805	0.007197	0.4935
+CERS2	-0.484	0.007538	0.4946
+SEMA6C	0.5278	0.007425	0.4946
+LRRC8E	-0.8766	0.007533	0.4946
+RRAS	-0.8278	0.007486	0.4946
+MASP1	0.6165	0.007535	0.4946
+RHBDF1	-0.6514	0.00761	0.4974
+UBQLN2	0.2471	0.007667	0.4991
+DOCK1	-0.7425	0.007715	0.5003
+DSCAML1	0.6893	0.007823	0.5033
+ZNF197	0.417	0.0078	0.5033
+LRIG3	-0.9736	0.008134	0.5161
+CUX2	0.6015	0.008177	0.5161
+UGGT2	-0.5188	0.008106	0.5161
+HSDL1	0.2664	0.008179	0.5161
+RBPMS	-0.7992	0.008079	0.5161
+CD164	-0.757	0.00828	0.5205
+L1TD1	-1.033	0.008321	0.5206
+PRDX6	-0.5123	0.008346	0.5206
+FAM46C	-0.9537	0.008391	0.5215
+ADAM33	-0.9939	0.008549	0.5293
+TLK1	-0.2367	0.00876	0.5403
+KCNK2	0.6097	0.008794	0.5404
+POLR3A	0.2868	0.009062	0.5426
+GANAB	-0.3036	0.009048	0.5426
+CPOX	-0.3403	0.009023	0.5426
+MICA	-0.859	0.008998	0.5426
+POU3F2	0.4784	0.008894	0.5426
+AUTS2	0.39	0.009006	0.5426
+SYPL1	-0.4891	0.008937	0.5426
+MSN	-0.3958	0.009132	0.5448
+ZCCHC24	-0.9672	0.009169	0.545
+GSTO1	-0.4109	0.009215	0.5458
+XDH	0.954	0.00933	0.5486
+PABPC1L2B	0.8795	0.009309	0.5486
+POGK	0.2803	0.009736	0.5624
+EFEMP2	-0.9948	0.009655	0.5624
+MYADM	-0.7661	0.009726	0.5624
+ORC4	0.3291	0.009609	0.5624
+INSM1	0.5511	0.009701	0.5624
+C14orf149	-0.5111	0.01024	0.5647
+MFGE8	-0.6672	0.01011	0.5647
+CEACAM1	-0.981	0.01007	0.5647
+PLEKHA4	-0.8802	0.01021	0.5647
+MERTK	-0.7662	0.009946	0.5647
+MARCH4	0.6728	0.0103	0.5647
+GBX2	0.8828	0.01022	0.5647
+SDC4	-0.6983	0.009882	0.5647
+ITGA9	-0.944	0.01008	0.5647
+SCN5A	-0.9351	0.01019	0.5647
+MFI2	-0.8345	0.01026	0.5647
+RAB11FIP1	-0.7027	0.01033	0.5647
+TPD52	-0.7816	0.01023	0.5647
+KIAA2022	0.5636	0.01014	0.5647
+TCEAL6	0.8956	0.01016	0.5647
+MORC4	-0.9271	0.0103	0.5647
+POC1B	-0.3673	0.01042	0.5659
+MRC2	-0.6332	0.01039	0.5659
+KCTD6	-0.3616	0.01053	0.57
+MEX3A	0.3088	0.01065	0.5708
+ACTN1	-0.7487	0.01061	0.5708
+TICAM1	-0.8589	0.01061	0.5708
+NPC2	-0.6069	0.01078	0.5721
+COL6A6	-0.969	0.01076	0.5721
+ZC3HAV1	-0.6569	0.01073	0.5721
+OAF	-0.7698	0.01096	0.5782
+RNASE4	-0.9059	0.01096	0.5782
+CYBASC3	-0.4846	0.011	0.5784
+CSRNP1	-0.5808	0.01106	0.5795
+HLA-B	-0.868	0.01116	0.5831
+ZNF689	0.2551	0.01125	0.5858
+SP9	0.9371	0.01128	0.5858
+WASF2	-0.6745	0.0114	0.5886
+SLFN12	-0.9886	0.01141	0.5886
+FLNA	-0.614	0.01146	0.5896
+FREM2	-0.9473	0.01154	0.5914
+PDIA3P	-0.3457	0.01185	0.5983
+GAS2L2	0.9302	0.01185	0.5983
+FERMT1	-0.9868	0.01187	0.5983
+SEC14L6	-0.9848	0.01193	0.5983
+CSPG5	0.6937	0.01186	0.5983
+C7orf41	0.3768	0.0119	0.5983
+MYBL1	-0.5962	0.01188	0.5983
+HJURP	-0.8059	0.01202	0.6014
+SH3BP5L	0.2129	0.01241	0.6059
+DDN	0.7147	0.01244	0.6059
+RAB35	0.2403	0.0124	0.6059
+RBPMS2	-0.6679	0.01232	0.6059
+MYLK3	0.8447	0.01234	0.6059
+ZFYVE20	0.2118	0.01226	0.6059
+ACSL6	0.6116	0.01224	0.6059
+PCDHGB1	-0.8347	0.01224	0.6059
+SYNPO	-0.9788	0.01241	0.6059
+ARHGAP17	-0.3736	0.01264	0.6065
+ETFB	0.505	0.01264	0.6065
+CRYBA4	-0.9657	0.01264	0.6065
+F2RL2	-0.9768	0.01251	0.6065
+STOM	-0.743	0.01264	0.6065
+C15orf59	0.6647	0.01277	0.6072
+NCAN	0.5804	0.01274	0.6072
+GPC4	-0.7703	0.01277	0.6072
+DES	-0.9714	0.01286	0.6096
+LEPREL2	-0.7969	0.01293	0.6112
+GRIN2A	0.6614	0.01302	0.6122
+FAM84B	0.6649	0.01301	0.6122
+CCND1	-0.5753	0.01313	0.6154
+SEPN1	-0.3657	0.01325	0.6177
+CGN	-0.7533	0.01333	0.6177
+BAG5	0.2349	0.01328	0.6177
+WWC2	-0.4373	0.01333	0.6177
+ANO6	-0.5992	0.01349	0.6233
+FZD4	-0.8521	0.01357	0.6255
+DIAPH3	-0.7778	0.01367	0.6284
+RUNX1	-0.9599	0.01374	0.6298
+NTS	0.8462	0.01385	0.631
+TBC1D8B	-0.9647	0.01381	0.631
+GP5	-0.9553	0.01392	0.6324
+ZNF547	0.5118	0.01398	0.6336
+B2M	-0.7496	0.01412	0.6364
+GPANK1	0.3544	0.01412	0.6364
+MYCL1	0.564	0.01419	0.6377
+C15orf42	-0.7478	0.01427	0.6397
+PTP4A3	-0.6072	0.01435	0.6417
+TGFB1I1	-0.8773	0.01443	0.6434
+PTGDR2	-0.9554	0.0147	0.6467
+RARG	-0.9358	0.01459	0.6467
+RAB34	-0.8674	0.01459	0.6467
+DSC2	-0.6871	0.0147	0.6467
+FZD5	-0.654	0.01478	0.6467
+KLHL18	0.249	0.01466	0.6467
+PCDHGB5	-0.956	0.01477	0.6467
+EFNA1	-0.7949	0.01488	0.6476
+KIAA0087	0.9528	0.01488	0.6476
+AURKA	-0.652	0.01506	0.6535
+GAL3ST3	0.4134	0.01511	0.654
+WNT7A	0.7548	0.01515	0.6543
+C10orf105	0.8882	0.01528	0.6553
+TUBA1C	-0.6215	0.01531	0.6553
+ADAMTS9	-0.8947	0.01534	0.6553
+PNMA2	0.4278	0.01524	0.6553
+MAN1C1	-0.5596	0.01579	0.6597
+CDC20	-0.7767	0.01562	0.6597
+PACSIN3	-0.8907	0.01553	0.6597
+PTHLH	-0.9265	0.01572	0.6597
+DAZL	-0.9135	0.01572	0.6597
+SRA1	0.3041	0.01559	0.6597
+ARPC1B	-0.6737	0.0158	0.6597
+IMMP2L	-0.4426	0.01559	0.6597
+ROR2	-0.9148	0.01578	0.6597
+PIEZO1	-0.7733	0.0159	0.6621
+SOCS3	-0.9404	0.01601	0.6634
+LOC150568	0.8026	0.01601	0.6634
+RASL12	-0.8837	0.01609	0.665
+SATL1	0.8447	0.01618	0.6671
+C1orf27	-0.3158	0.01624	0.6679
+TMEM198	0.4547	0.01647	0.6739
+MYOT	-0.928	0.01645	0.6739
+PLAU	-0.8276	0.01655	0.6749
+GPC6	-0.5345	0.01662	0.6749
+COPZ2	-0.9194	0.01661	0.6749
+MTHFR	0.2998	0.01729	0.6753
+PARD3	-0.3704	0.01726	0.6753
+PDIA3	-0.3509	0.01708	0.6753
+TPM1	-0.7177	0.01711	0.6753
+PRC1	-0.5474	0.01718	0.6753
+PLK1	-0.6854	0.01672	0.6753
+PIEZO2	-0.8503	0.01699	0.6753
+ZNF90	-0.7327	0.0169	0.6753
+GALP	0.8155	0.01693	0.6753
+LOC440905	-0.8935	0.01671	0.6753
+RFTN1	-0.8999	0.01677	0.6753
+TMEM196	0.7006	0.01701	0.6753
+NOD1	-0.5152	0.01707	0.6753
+GLI3	-0.8242	0.01696	0.6753
+WBSCR27	-0.9343	0.01718	0.6753
+C7orf34	0.9318	0.01721	0.6753
+FRRS1	-0.8998	0.01774	0.676
+FAM19A3	-0.8923	0.01788	0.676
+CNIH3	-0.4817	0.01784	0.676
+MDK	-0.7156	0.01749	0.676
+GXYLT1	-0.6944	0.01783	0.676
+CTDSP2	-0.5123	0.01765	0.676
+SIX4	-0.8657	0.01784	0.676
+SLCO3A1	0.4415	0.01784	0.676
+PTBP1	-0.4376	0.0178	0.676
+ZNF324	0.3139	0.01754	0.676
+COLEC11	-0.9194	0.01776	0.676
+APOBEC3B	-0.9292	0.01771	0.676
+MAGEF1	0.3826	0.01768	0.676
+SHROOM2	0.5668	0.01763	0.676
+KIAA1217	-0.7442	0.01871	0.69
+ST8SIA1	0.3806	0.01869	0.69
+LOC338758	0.6997	0.01834	0.69
+LOC283731	-0.4064	0.01872	0.69
+LYSMD4	0.4181	0.01859	0.69
+CYP1B1	-0.9248	0.01834	0.69
+PDGFRB	-0.9184	0.01853	0.69
+FKBP5	-0.7347	0.01841	0.69
+AGBL3	0.5843	0.01861	0.69
+MNX1	0.921	0.01864	0.69
+PHKA2	-0.4551	0.01855	0.69
+CCBL2	-0.3365	0.01892	0.6925
+CLIC5	-0.9123	0.01883	0.6925
+WDR67	-0.3832	0.01887	0.6925
+SLC38A5	-0.7194	0.01895	0.6925
+KLF4	-0.8767	0.01907	0.6951
+HSD17B11	-0.6032	0.0192	0.6985
+SLC2A3	-0.5111	0.0193	0.7005
+CSDAP1	-0.7114	0.01946	0.7046
+SBNO2	-0.3452	0.01955	0.7064
+LRRC4C	0.5704	0.01962	0.7074
+ATL3	-0.5278	0.01975	0.7074
+C1S	-0.9056	0.01966	0.7074
+PLAUR	-0.8162	0.01974	0.7074
+LOC256021	0.6774	0.01988	0.709
+EID2B	0.4332	0.01987	0.709
+MTA3	-0.4227	0.02009	0.7151
+BSG	-0.2869	0.02023	0.7167
+LAMP2	-0.2974	0.02022	0.7167
+ATHL1	-0.9069	0.02033	0.7179
+AHNAK	-0.7987	0.02044	0.7179
+IGFBP5	-0.9055	0.02035	0.7179
+MBOAT1	-0.7067	0.02044	0.7179
+EGFR	-0.6912	0.02048	0.7179
+FRAT1	0.4904	0.02073	0.7201
+TBX10	-0.9015	0.02084	0.7201
+KCNA6	0.4245	0.02068	0.7201
+MATN3	-0.8883	0.02079	0.7201
+LTBP1	-0.8212	0.02081	0.7201
+SCARF2	-0.7426	0.02064	0.7201
+BAI3	0.3512	0.02085	0.7201
+LOC654433	0.828	0.02096	0.7226
+GTSE1	-0.5797	0.02106	0.7229
+SCRG1	-0.9048	0.02106	0.7229
+AHCY	-0.5073	0.02111	0.7231
+LRRTM3	0.609	0.02122	0.7239
+MYO1C	-0.7078	0.02121	0.7239
+AKR1E2	0.7441	0.02134	0.7264
+PCDHGB4	-0.8844	0.02142	0.7277
+P2RX4	-0.3807	0.02159	0.7309
+LINC00574	0.7267	0.02161	0.7309
+BPI	-0.8613	0.02171	0.7313
+ATP2B2	0.751	0.02167	0.7313
+CDCA2	-0.6352	0.0218	0.7328
+FGF8	-0.8835	0.02191	0.7338
+FAM198A	-0.8977	0.02192	0.7338
+FMO2	-0.8029	0.0222	0.7401
+LOC642852	0.5471	0.02215	0.7401
+IGF2R	-0.5322	0.02227	0.741
+TIGD3	0.6643	0.02236	0.7426
+GFPT2	-0.6006	0.02241	0.7429
+BCAS2	0.3073	0.02266	0.7431
+IQGAP3	-0.7145	0.02274	0.7431
+ZDHHC20	-0.3828	0.02266	0.7431
+ARID4A	0.2039	0.02278	0.7431
+SPHK1	-0.8455	0.02253	0.7431
+FAM110C	-0.7952	0.02259	0.7431
+PXDN	-0.7352	0.02275	0.7431
+THSD7B	-0.5467	0.02268	0.7431
+PRUNE	0.2438	0.02292	0.7459
+ECE1	-0.7102	0.02311	0.7477
+CECR7	0.8781	0.02308	0.7477
+HTRA3	-0.8843	0.02303	0.7477
+WDR47	0.4054	0.0234	0.7537
+SLITRK5	0.4093	0.02345	0.7537
+AURKB	-0.6811	0.02349	0.7537
+IGFBP4	-0.8858	0.02352	0.7537
+CDC25C	-0.6363	0.02348	0.7537
+GPM6A	0.649	0.02357	0.7538
+BTBD19	-0.7584	0.02376	0.755
+GPR26	0.7615	0.02388	0.755
+SIAH3	0.7351	0.02393	0.755
+PLCB2	-0.8363	0.02385	0.755
+DNM1P35	0.6404	0.02389	0.755
+RRBP1	-0.8115	0.0238	0.755
+ACOT8	0.3293	0.02375	0.755
+OLFML2B	-0.8708	0.02414	0.7572
+TROAP	-0.7143	0.02411	0.7572
+WIPI1	-0.6362	0.02411	0.7572
+VOPP1	0.2574	0.02422	0.7584
+HES1	-0.5633	0.02436	0.7611
+FIBIN	-0.8826	0.02444	0.7624
+KDELC2	-0.8298	0.02449	0.7625
+ERRFI1	-0.5181	0.02486	0.767
+ZNF26	0.2525	0.0249	0.767
+RAB20	-0.7225	0.02495	0.767
+CEP112	-0.5528	0.02496	0.767
+PDYN	0.8461	0.02487	0.767
+SEL1L3	-0.794	0.0249	0.767
+CENPE	-0.581	0.02474	0.767
+LOC100505695	-0.8418	0.02506	0.7684
+ST3GAL6	0.3335	0.02515	0.7698
+PPPDE1	-0.3884	0.02552	0.7705
+CYFIP1	-0.4708	0.02549	0.7705
+SPAG5	-0.6341	0.02525	0.7705
+FSTL3	-0.3936	0.02544	0.7705
+DKKL1	-0.5961	0.02555	0.7705
+PLA2R1	-0.8383	0.02533	0.7705
+SH3RF2	-0.8594	0.02543	0.7705
+NEDD9	-0.5615	0.02537	0.7705
+LOC400940	0.7406	0.02573	0.7737
+NPR2	-0.6064	0.02575	0.7737
+CKS1B	-0.6537	0.02617	0.778
+RNASEL	0.8586	0.02631	0.778
+KIAA1462	-0.8624	0.02641	0.778
+C10orf2	0.3805	0.02618	0.778
+PRKCDBP	-0.8186	0.02624	0.778
+ZNF564	0.3025	0.02598	0.778
+LOC100506421	0.6526	0.02601	0.778
+SNED1	-0.8004	0.02611	0.778
+SGMS2	-0.8683	0.02638	0.778
+TMEM151B	0.4716	0.02635	0.778
+LOC100507341	0.6623	0.02622	0.778
+KIF2C	-0.6374	0.02666	0.7837
+PRX	-0.6445	0.02676	0.7854
+LOXL4	-0.8597	0.02686	0.7864
+STXBP6	0.6668	0.02689	0.7864
+FAM13A	-0.4611	0.02712	0.7917
+IFITM10	0.6685	0.02744	0.7925
+CBFB	-0.3576	0.02735	0.7925
+DKFZp566F0947	-0.8205	0.02736	0.7925
+MAGI2	0.4314	0.02741	0.7925
+NIPAL2	-0.7441	0.0274	0.7925
+GPRASP2	0.4453	0.02732	0.7925
+DPH3P1	-0.5664	0.02774	0.7999
+C1orf54	-0.5484	0.02801	0.8025
+LIG4	0.3168	0.02811	0.8025
+GREM1	-0.8574	0.02807	0.8025
+TPM4	-0.6659	0.028	0.8025
+OSBPL10	-0.7943	0.02789	0.8025
+HPS3	-0.3542	0.02812	0.8025
+ANP32B	-0.4906	0.02825	0.8047
+FAM176B	-0.6818	0.02966	0.8067
+HPCAL4	0.5034	0.02927	0.8067
+LEPRE1	-0.7027	0.03137	0.8067
+MCOLN3	-0.7816	0.02861	0.8067
+GBP3	-0.8426	0.03082	0.8067
+SELENBP1	-0.7428	0.03013	0.8067
+LMNA	-0.499	0.03161	0.8067
+KCNJ9	0.7358	0.02904	0.8067
+CENPL	-0.3831	0.02874	0.8067
+KIF14	-0.6281	0.0329	0.8067
+EIF2D	-0.4348	0.02953	0.8067
+CAPN2	-0.3726	0.02973	0.8067
+RGR	0.8449	0.03118	0.8067
+EFCAB4A	-0.6655	0.03031	0.8067
+TPP1	-0.3513	0.03121	0.8067
+MICAL2	-0.85	0.02966	0.8067
+C11orf94	0.8245	0.03271	0.8067
+NADSYN1	-0.3401	0.03253	0.8067
+FOXM1	-0.5518	0.02937	0.8067
+SLC38A1	0.3146	0.03036	0.8067
+ANKS1B	0.6226	0.03231	0.8067
+GJB6	-0.7271	0.03074	0.8067
+ANG	-0.7201	0.02984	0.8067
+DLGAP5	-0.6065	0.03271	0.8067
+FAM161B	0.3957	0.02968	0.8067
+SERPINA5	-0.831	0.03008	0.8067
+RASGRP1	-0.4108	0.02946	0.8067
+THBS1	-0.85	0.0302	0.8067
+ST8SIA2	0.4492	0.03147	0.8067
+RPS2	-0.4238	0.03074	0.8067
+ITPRIPL2	-0.854	0.02869	0.8067
+NFATC3	-0.4057	0.02928	0.8067
+PLD2	-0.669	0.03252	0.8067
+SMCR7	0.3445	0.02996	0.8067
+SMARCD2	-0.6611	0.03159	0.8067
+TUBB6	-0.7194	0.0311	0.8067
+DSG2	-0.6812	0.03226	0.8067
+ACAA2	-0.446	0.0318	0.8067
+GADD45B	-0.8334	0.0328	0.8067
+CELF5	0.4393	0.03193	0.8067
+TMEM221	-0.7671	0.03202	0.8067
+WDR62	-0.5769	0.02965	0.8067
+ZNF570	0.2708	0.02949	0.8067
+SPRED3	0.6054	0.03154	0.8067
+RPL13A	-0.6422	0.03157	0.8067
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+CENPA	-0.6156	0.03213	0.8067
+MTHFD2	-0.7685	0.03077	0.8067
+FAM176A	-0.8313	0.03045	0.8067
+GCFC2	-0.344	0.02982	0.8067
+CAPG	-0.8383	0.0296	0.8067
+EDAR	-0.846	0.03099	0.8067
+BUB1	-0.5945	0.02946	0.8067
+ZRANB3	-0.5034	0.03047	0.8067
+SLC4A10	0.725	0.03287	0.8067
+WIPF1	-0.555	0.02846	0.8067
+CCDC141	-0.8347	0.02951	0.8067
+CCDC150	-0.5535	0.03183	0.8067
+ASXL1	-0.4027	0.03086	0.8067
+SS18L1	0.3675	0.03085	0.8067
+C22orf29	0.2474	0.03243	0.8067
+SMCR7L	0.1929	0.03016	0.8067
+GRIP2	0.8047	0.03072	0.8067
+GPR62	0.808	0.03283	0.8067
+MITF	-0.7604	0.03019	0.8067
+FDCSP	-0.8326	0.03137	0.8067
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+LHFPL2	-0.7202	0.03111	0.8067
+ERAP1	-0.4938	0.03164	0.8067
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+TEAD3	-0.7435	0.02893	0.8067
+SP4	0.3326	0.03284	0.8067
+TRIL	-0.7788	0.0308	0.8067
+STK17A	-0.3401	0.02899	0.8067
+RARRES2	-0.844	0.02997	0.8067
+CHMP7	0.283	0.03105	0.8067
+ZNF703	-0.6856	0.03162	0.8067
+ST18	0.5283	0.03123	0.8067
+LOC100132891	-0.7824	0.03111	0.8067
+C8orf84	-0.7652	0.03183	0.8067
+ZFHX4	0.4288	0.03044	0.8067
+GDF6	-0.8041	0.03241	0.8067
+RANBP6	0.3012	0.03171	0.8067
+FAM189A2	-0.8114	0.0328	0.8067
+TNC	-0.8197	0.03225	0.8067
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+RPL12	-0.5342	0.02943	0.8067
+GBGT1	-0.8343	0.03067	0.8067
+ARHGAP6	-0.8167	0.03244	0.8067
+SHROOM4	-0.645	0.03263	0.8067
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+COL4A5	-0.7708	0.03259	0.8067
+GAB3	-0.7788	0.03107	0.8067
+B3GALNT2	-0.5213	0.03322	0.809
+ZNF142	0.2381	0.03314	0.809
+HEXB	-0.4081	0.03323	0.809
+PPP1R3G	-0.8344	0.03314	0.809
+MDFIC	-0.6575	0.03324	0.809
+RXFP3	0.832	0.03336	0.8098
+PTTG3P	-0.6051	0.03333	0.8098
+C1orf133	-0.7152	0.03375	0.8176
+TP53I13	-0.422	0.03379	0.8176
+SLC44A3	-0.7081	0.03438	0.8264
+C1orf115	-0.6315	0.03446	0.8264
+ANO4	-0.7486	0.03437	0.8264
+FNIP2	0.2913	0.03444	0.8264
+CRHBP	-0.8231	0.03437	0.8264
+KIAA0368	-0.3228	0.0344	0.8264
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+PARPBP	-0.5436	0.0348	0.8277
+FRMD6	-0.7527	0.03488	0.8277
+LIN7B	0.5171	0.03464	0.8277
+COL4A3BP	-0.5851	0.03462	0.8277
+SCML4	0.7487	0.03473	0.8277
+ZNF815	0.3814	0.03489	0.8277
+DIRAS2	0.4271	0.03474	0.8277
+SULT1A1	-0.7929	0.03504	0.8292
+ADAMTS9-AS2	-0.7074	0.03508	0.8292
+CHTOP	0.2474	0.03521	0.8311
+DKK2	-0.8042	0.03534	0.8331
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+CDK1	-0.5524	0.03609	0.8345
+SHISA2	-0.8216	0.03606	0.8345
+GJD2	0.6358	0.03608	0.8345
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+OMG	0.805	0.03565	0.8345
+MYL4	-0.7755	0.03625	0.8345
+LOC100131096	-0.7581	0.03632	0.8345
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+STEAP3	-0.5503	0.0359	0.8345
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+APOL4	-0.8187	0.03588	0.8345
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+PHLDB2	-0.8077	0.03626	0.8345
+NAP1L5	0.4839	0.03554	0.8345
+CFI	-0.7104	0.0361	0.8345
+SORBS3	-0.6631	0.03587	0.8345
+TOP1MT	-0.4407	0.03585	0.8345
+OPLAH	-0.4763	0.03653	0.8383
+ASAP3	-0.2714	0.03787	0.8394
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+CPT1A	-0.3581	0.0378	0.8394
+GALNT6	-0.7937	0.03784	0.8394
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+ISL2	0.8166	0.03724	0.8394
+GOLGA6L10	0.8026	0.03693	0.8394
+TMEM100	-0.8097	0.03759	0.8394
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+JUNB	-0.5495	0.03735	0.8394
+ZNF614	0.2666	0.03762	0.8394
+ZNF600	-0.742	0.0372	0.8394
+TCF7L1	-0.5031	0.03767	0.8394
+ACOX2	-0.7993	0.03678	0.8394
+FAM107A	0.8057	0.03704	0.8394
+FGFBP2	-0.7944	0.03791	0.8394
+LOC644100	0.8085	0.03748	0.8394
+CPEB4	0.477	0.03704	0.8394
+GUCA1A	0.4614	0.03744	0.8394
+CALD1	-0.7359	0.03704	0.8394
+EPHB6	0.6366	0.03748	0.8394
+PENK	-0.8034	0.03669	0.8394
+TMEM74	0.5734	0.03704	0.8394
+RPS6	-0.5392	0.03785	0.8394
+OLFML2A	-0.6171	0.03745	0.8394
+PLP2	-0.6977	0.03664	0.8394
+VASH1	0.3249	0.03799	0.8399
+GRIP1	0.4312	0.03808	0.8408
+PDE1A	0.6831	0.03824	0.8421
+PKD2	-0.5166	0.03824	0.8421
+C14orf39	-0.7682	0.03839	0.8434
+SCPEP1	-0.6581	0.0384	0.8434
+CTNNA3	-0.8021	0.03904	0.8447
+LTBP3	-0.6738	0.03908	0.8447
+TRAFD1	0.1378	0.0388	0.8447
+HAUS4	-0.5229	0.03918	0.8447
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+RND1	0.5434	0.0393	0.8462
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+KLF16	-0.422	0.04448	0.862
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+ITGB1	-0.4866	0.06647	0.9251
+ZNF25	0.2887	0.06377	0.9251
+REEP3	-0.4063	0.06811	0.9251
+LOC100288974	-0.7105	0.06576	0.9251
+ANXA11	-0.7142	0.0656	0.9251
+BLNK	-0.7268	0.063	0.9251
+PKD2L1	0.6622	0.06545	0.9251
+C10orf82	0.5933	0.0636	0.9251
+ZRANB1	0.277	0.06565	0.9251
+RHOG	-0.4954	0.06342	0.9251
+C12orf60	0.5324	0.06702	0.9251
+FMNL3	-0.4149	0.067	0.9251
+LOC100507250	0.5542	0.06792	0.9251
+PPFIA2	0.4545	0.0657	0.9251
+BTG1	0.3694	0.06776	0.9251
+ACTR6	0.2759	0.06305	0.9251
+ELF1	-0.4009	0.06604	0.9251
+ABCC4	-0.6553	0.06527	0.9251
+MBNL2	-0.3685	0.06499	0.9251
+GRTP1	-0.4961	0.06196	0.9251
+NKX2-1	0.7098	0.06567	0.9251
+FBLN5	-0.6834	0.06507	0.9251
+SLC24A4	0.7237	0.06347	0.9251
+RIN3	-0.7138	0.06356	0.9251
+GSC	-0.677	0.06558	0.9251
+WHAMMP3	-0.6576	0.06473	0.9251
+SHC4	0.5361	0.06739	0.9251
+FLJ10038	0.3791	0.06352	0.9251
+PPIB	-0.3257	0.06689	0.9251
+SKOR1	0.7045	0.06272	0.9251
+SEC11A	-0.3392	0.06784	0.9251
+MESP2	-0.6863	0.06485	0.9251
+TTC23	-0.3564	0.06667	0.9251
+IRX5	-0.7205	0.06582	0.9251
+PARD6A	0.4626	0.06806	0.9251
+LOC100506083	0.4945	0.06473	0.9251
+AP1G1	0.1424	0.06301	0.9251
+SLC43A2	0.3494	0.06221	0.9251
+CALCOCO2	-0.3496	0.06389	0.9251
+SEPT9	-0.4146	0.06707	0.9251
+NARF	0.2003	0.06722	0.9251
+SLC14A2	0.7223	0.0623	0.9251
+SGTA	0.2295	0.06681	0.9251
+STAP2	-0.4388	0.06778	0.9251
+CACNA1A	0.6005	0.0633	0.9251
+PBX4	-0.5926	0.06672	0.9251
+ZNF30	0.2213	0.06755	0.9251
+SAMD4B	-0.1824	0.06461	0.9251
+TGFB1	-0.6255	0.06443	0.9251
+SLC8A2	0.5135	0.06325	0.9251
+FLT3LG	-0.692	0.0649	0.9251
+TMEM214	-0.496	0.06786	0.9251
+PLB1	-0.7173	0.06319	0.9251
+EML4	-0.4048	0.06662	0.9251
+TEKT4	0.701	0.06517	0.9251
+FAHD2A	-0.2582	0.06363	0.9251
+LIMS1	-0.5014	0.06794	0.9251
+POTEF	-0.7024	0.06758	0.9251
+NCKAP5	-0.3493	0.06549	0.9251
+SERPINE2	-0.3999	0.06232	0.9251
+NYAP2	0.6993	0.06519	0.9251
+ZNF217	-0.5587	0.06492	0.9251
+CBLN4	0.5841	0.06282	0.9251
+USP25	-0.3405	0.06659	0.9251
+LHFPL4	0.5292	0.06225	0.9251
+VGLL4	-0.3355	0.06504	0.9251
+RBMS3	-0.6397	0.06258	0.9251
+ZNF167	0.4354	0.06685	0.9251
+SEMA3B	-0.6083	0.0665	0.9251
+ROBO2	0.3634	0.06146	0.9251
+NIT2	-0.5819	0.06183	0.9251
+ABI3BP	-0.7291	0.06193	0.9251
+DZIP3	0.3206	0.06691	0.9251
+PVRL3-AS1	0.6451	0.06801	0.9251
+TAGLN3	0.4329	0.06554	0.9251
+BOC	-0.6256	0.06355	0.9251
+GYG1	-0.3685	0.06421	0.9251
+NAALADL2	-0.6888	0.0651	0.9251
+LEPREL1	-0.7291	0.0615	0.9251
+PRKG2	-0.6991	0.06468	0.9251
+CYP4V2	0.5012	0.06519	0.9251
+C6	-0.6988	0.06235	0.9251
+ISOC1	-0.5486	0.0642	0.9251
+PCDHB10	0.3254	0.06221	0.9251
+ANXA6	-0.6452	0.06552	0.9251
+KIF4B	-0.5101	0.06523	0.9251
+PRR7	0.1904	0.06493	0.9251
+LOC729678	0.6278	0.06551	0.9251
+HIST1H3J	-0.6119	0.06763	0.9251
+ZBTB22	0.2669	0.06404	0.9251
+KIFC1	-0.549	0.06264	0.9251
+TBP	0.2407	0.0661	0.9251
+PMS2CL	0.3408	0.06648	0.9251
+FKBP14	-0.6002	0.06604	0.9251
+FKBP9	-0.4174	0.06186	0.9251
+GRM3	0.6129	0.06304	0.9251
+EPHB4	-0.6453	0.06787	0.9251
+LRRN3	0.5473	0.068	0.9251
+KIAA1147	0.257	0.06708	0.9251
+FAM115A	0.2185	0.06468	0.9251
+PDIA4	-0.4169	0.06375	0.9251
+ZNF775	0.2417	0.06198	0.9251
+FAM110B	0.2576	0.0615	0.9251
+DMRT3	0.7178	0.06674	0.9251
+CDKN2B	-0.7039	0.06592	0.9251
+TSTD2	0.2954	0.06597	0.9251
+PTGES	-0.7016	0.06267	0.9251
+FIBCD1	-0.6829	0.06516	0.9251
+STARD8	-0.7074	0.06244	0.9251
+KLHL4	-0.6903	0.0657	0.9251
+SH2D1A	-0.6782	0.06569	0.9251
+HLX	-0.6728	0.06837	0.927
+FOSB	-0.6318	0.06832	0.927
+AKR1C3	-0.7137	0.06854	0.9278
+NFE2L2	-0.3512	0.06853	0.9278
+TRIP10	-0.5324	0.06872	0.9279
+ZNF14	0.3806	0.06869	0.9279
+DAB2	-0.5142	0.06862	0.9279
+CCNE1	-0.4662	0.06905	0.9309
+CRTAP	-0.5294	0.06906	0.9309
+MYBPHL	-0.6574	0.06967	0.9317
+RAB13	-0.5093	0.07021	0.9317
+IFITM2	-0.7098	0.06986	0.9317
+WEE1	-0.349	0.07071	0.9317
+LIN7C	0.3113	0.07001	0.9317
+NEAT1	-0.5604	0.06935	0.9317
+PRICKLE1	-0.6021	0.06958	0.9317
+TNFRSF12A	-0.525	0.07083	0.9317
+ROGDI	0.3456	0.06977	0.9317
+CLEC16A	0.197	0.06923	0.9317
+TRADD	-0.6894	0.0708	0.9317
+ATXN7L3	0.2479	0.07036	0.9317
+COIL	0.2361	0.06995	0.9317
+SPAST	0.3323	0.07065	0.9317
+RQCD1	0.2386	0.07059	0.9317
+HDLBP	-0.3856	0.07093	0.9317
+ZNF502	0.7101	0.06932	0.9317
+LRRC58	-0.3642	0.07076	0.9317
+C4orf48	0.2925	0.07013	0.9317
+HMX1	-0.702	0.07093	0.9317
+SLC39A8	-0.3564	0.06976	0.9317
+PARP8	0.26	0.07093	0.9317
+AGXT2L2	-0.4154	0.07086	0.9317
+HIST1H4K	-0.6587	0.07053	0.9317
+MDFI	-0.4686	0.0692	0.9317
+TFEB	-0.5835	0.07031	0.9317
+SOBP	0.2902	0.0707	0.9317
+EPM2A	0.3081	0.0706	0.9317
+RASEF	-0.7099	0.07028	0.9317
+TOR2A	0.1958	0.07037	0.9317
+EFNB1	-0.4579	0.07022	0.9317
+IRS4	-0.6417	0.07016	0.9317
+FMNL1	0.5174	0.07107	0.9322
+CABLES2	0.1954	0.07108	0.9322
+PALMD	-0.7062	0.07154	0.933
+ARHGAP30	0.4733	0.07142	0.933
+SLC6A12	-0.6354	0.0716	0.933
+FBXL8	-0.669	0.0716	0.933
+MPP4	-0.6609	0.07149	0.933
+FAM169A	0.2892	0.07155	0.933
+POPDC3	-0.6543	0.07148	0.933
+PRKDC	-0.3408	0.07144	0.933
+MTCP1NB	-0.3672	0.07166	0.9331
+KLHL35	0.547	0.07195	0.9361
+LOC388630	-0.6851	0.07216	0.9373
+TERF2	0.2403	0.07216	0.9373
+PDIK1L	0.3225	0.07438	0.9393
+CDKN2C	-0.5881	0.07417	0.9393
+STAM	0.2146	0.07258	0.9393
+CEP55	-0.5626	0.07374	0.9393
+OAT	-0.3282	0.07472	0.9393
+DPYSL4	0.3403	0.07368	0.9393
+INCENP	-0.4533	0.07294	0.9393
+FLJ39051	0.4429	0.07465	0.9393
+TNFRSF1A	-0.5017	0.07441	0.9393
+EMP1	-0.6983	0.07371	0.9393
+LRRK2	-0.638	0.07436	0.9393
+HMGA2	-0.6418	0.07437	0.9393
+PAWR	-0.4633	0.07481	0.9393
+KDELC1	-0.4797	0.07463	0.9393
+STOML1	0.44	0.073	0.9393
+CPLX3	0.5793	0.07442	0.9393
+IQGAP1	-0.5202	0.07443	0.9393
+UNC45A	-0.399	0.07369	0.9393
+QPRT	-0.459	0.07395	0.9393
+FHOD1	-0.5817	0.07342	0.9393
+PMFBP1	-0.6728	0.07513	0.9393
+VPS53	0.2412	0.07388	0.9393
+GSG2	-0.5565	0.07526	0.9393
+DNAH2	0.5147	0.0737	0.9393
+MRM1	0.4208	0.07515	0.9393
+MPP2	0.354	0.07332	0.9393
+ITGB4	-0.6953	0.07405	0.9393
+CCDC68	-0.696	0.07529	0.9393
+SALL3	0.49	0.07403	0.9393
+TMC4	-0.5552	0.0751	0.9393
+ZNF329	0.2676	0.07305	0.9393
+ZNF324B	0.4072	0.07329	0.9393
+MAT2A	0.3537	0.0727	0.9393
+RND3	0.4659	0.07447	0.9393
+IL5RA	0.6958	0.07526	0.9393
+TUSC2	0.3129	0.07499	0.9393
+TACC3	-0.4554	0.07503	0.9393
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+KLHL8	0.2803	0.07494	0.9393
+CXXC4	0.3722	0.07323	0.9393
+RAB33B	-0.3195	0.07345	0.9393
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+RIOK1	0.2755	0.07471	0.9393
+GUSB	-0.289	0.07272	0.9393
+WNT16	-0.6902	0.07499	0.9393
+MTMR9	0.4022	0.07321	0.9393
+RB1CC1	0.1851	0.07324	0.9393
+LOC100130301	-0.6884	0.07526	0.9393
+ZHX2	-0.1906	0.07262	0.9393
+C8orf31	0.662	0.07311	0.9393
+PTPLAD2	-0.6807	0.07516	0.9393
+ANGPTL2	-0.6812	0.0727	0.9393
+XKR9	0.6838	0.07538	0.9397
+NPM3	-0.43	0.07558	0.9414
+NGF	-0.6824	0.07589	0.9417
+WDR37	0.2218	0.076	0.9417
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+GIPC3	-0.696	0.07581	0.9417
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+GHR	-0.6939	0.07599	0.9417
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+RPS4X	-0.5797	0.0761	0.9423
+CDK2AP2	-0.3551	0.07631	0.9432
+LOC146336	0.693	0.07658	0.9432
+UBE2C	-0.6278	0.07624	0.9432
+C22orf39	0.2448	0.07654	0.9432
+MFSD7	-0.6817	0.07645	0.9432
+CANX	-0.2312	0.07664	0.9432
+VIPR2	0.6908	0.07663	0.9432
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+TMEM229B	0.5479	0.0767	0.9433
+PCDH17	0.2916	0.07683	0.9434
+HOXA10	-0.6931	0.0768	0.9434
+SYT12	0.5719	0.077	0.9434
+FLJ44054	-0.6519	0.07698	0.9434
+BASP1	0.4201	0.07695	0.9434
+NCAPH2	0.2371	0.07719	0.9445
+PLA1A	-0.5791	0.07721	0.9445
+EGFLAM	-0.6643	0.07726	0.9445
+CD151	-0.3897	0.0774	0.9449
+STX11	-0.677	0.07738	0.9449
+APRT	-0.3698	0.07756	0.9456
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+ARRDC2	-0.5913	0.0778	0.9469
+POLD4	-0.613	0.07788	0.9471
+LDLRAP1	-0.6823	0.07828	0.9475
+SYDE2	-0.558	0.07807	0.9475
+TP53BP2	-0.3194	0.07848	0.9475
+ADAM12	-0.5572	0.07815	0.9475
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+SLC26A7	-0.6902	0.07843	0.9475
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+CDCA8	-0.5135	0.0788	0.9479
+MKNK1	-0.2483	0.07956	0.9479
+TOMM40L	0.3821	0.0791	0.9479
+PTGS2	-0.6878	0.07897	0.9479
+DNAJC1	-0.4755	0.07904	0.9479
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+PSD	0.5206	0.07953	0.9479
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+CKAP4	-0.3698	0.07866	0.9479
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+TAX1BP3	-0.4054	0.07874	0.9479
+LOC653653	-0.4477	0.0791	0.9479
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+CASP7	-0.4341	0.08068	0.9479
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+DET1	0.2051	0.08049	0.9479
+CYLD	0.319	0.08012	0.9479
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+CISH	-0.5241	0.08075	0.9479
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+NYNRIN	-0.5606	0.08159	0.9534
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+SERPINF2	-0.6734	0.08263	0.9575
+CCL2	-0.6794	0.08289	0.9575
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+BVES	-0.249	0.08263	0.9575
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+PLOD3	-0.4068	0.08346	0.9575
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+MELK	-0.5682	0.08424	0.9598
+IFI16	-0.6473	0.0848	0.9611
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+HHAT	-0.4914	0.08442	0.9611
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+RPL7A	-0.4194	0.08505	0.9611
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+MCF2L	0.4215	0.08624	0.9632
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+C8orf42	0.001161	0.9975	0.9996
+CSGALNACT1	-0.001458	0.9967	0.9996
+PPAPDC1B	0.0008906	0.9974	0.9996
+LINC00535	0.003013	0.9929	0.9996
+VPS28	0.0005436	0.9965	0.9996
+DNAJC25	-0.000678	0.9974	0.9996
+TSC1	0.001054	0.9962	0.9996
+RLIM	-0.001962	0.9932	0.9996
+TAF9B	-0.002379	0.9915	0.9996
+DDX3Y	-0.001194	0.996	0.9996
+ZNRF2	0.0002994	0.9988	0.9998
+FNDC5	0.0003447	0.9991	0.9998
+KANSL2	0.0002676	0.9992	0.9998
+ISCU	0.0001513	0.9992	0.9998
+CUEDC1	-0.0002373	0.999	0.9998
+ZNF559	0.0002839	0.9994	0.9998
+LUST	0.0003314	0.9993	0.9998
+ZNF346	0.0001664	0.999	0.9998
+LOC100128750	-0.0004801	0.999	0.9998
+USP11	-0.0003655	0.9991	0.9998
+N4BP1	-0.0001139	0.9994	0.9998
+CIRBP-AS1	0.0002081	0.9995	0.9998
+PKLR	-0.0001906	0.9996	0.9999
+OBFC1	-4.637e-05	0.9998	0.9999
+FKBP8	-5.51e-05	0.9997	0.9999
+LRMP	-3.651e-05	0.9999	1
+OXSM	8.828e-06	1	1
\ No newline at end of file
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/labels.tab	Tue Oct 23 06:57:26 2018 -0400
@@ -0,0 +1,11 @@
+Gene	log2FoldChange	pvalue	padj
+DOK6	0.51	1.861e-08	0.0003053
+TBX5	-2.129	5.655e-08	0.0004191
+SLC32A1	0.9003	7.664e-08	0.0004191
+IFITM1	-1.687	3.735e-06	0.006809
+NUP93	0.3659	3.373e-06	0.006809
+EMILIN2	1.534	2.976e-06	0.006809
+TPX2	-0.9974	2.097e-06	0.006809
+LAMA2	-1.425	2.39e-06	0.006809
+CAV2	-1.052	3.213e-06	0.006809
+TNN	-1.658	8.973e-06	0.01472
Binary file test-data/out.pdf has changed
Binary file test-data/out2.pdf has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/volcanoplot.R	Tue Oct 23 06:57:26 2018 -0400
@@ -0,0 +1,88 @@
+# setup R error handling to go to stderr
+options( show.error.messages=F, error = function () { cat( geterrmessage(), file=stderr() ); q( "no", 1, F ) } )
+
+# we need that to not crash galaxy with an UTF8 error on German LC settings.
+loc <- Sys.setlocale("LC_MESSAGES", "en_US.UTF-8")
+
+suppressPackageStartupMessages({
+    library(dplyr)
+    library(getopt)
+    library(ggplot2)
+    library(ggrepel)
+})
+
+options(stringAsFactors = FALSE, useFancyQuotes = FALSE)
+args <- commandArgs(trailingOnly = TRUE)
+
+spec <- matrix(c(
+    "input", "i", 1, "character",
+    "fdr_col", "a", 1, "integer",
+    "pval_col", "p", 1, "integer",
+    "lfc_col", "c", 1, "integer",
+    "label_col", "l", 1, "integer",
+    "signif_thresh", "s", 1, "double",
+    "lfc_thresh", "x", 1, "double",
+    "label_file", "f", 1, "character",
+    "top_num", "t", 1, "integer",
+    "title", "T", 1, "character",
+    "xlab", "X", 1, "character",
+    "ylab", "Y", 1, "character",
+    "legend", "L", 1, "character",
+    "llabs", "z", 1, "character"),
+    byrow=TRUE, ncol=4)
+opt <- getopt(spec)
+
+# Below modified from http://www.gettinggeneticsdone.com/2016/01/repel-overlapping-text-labels-in-ggplot2.html
+
+results <- read.delim(opt$input)
+results$fdr <- results[, opt$fdr_col]
+results$Pvalue <- results[, opt$pval_col]
+results$logFC <- results[, opt$lfc_col]
+results$labels <- results[, opt$label_col]
+label_down <- unlist(strsplit(opt$llabs, split=","))[1]
+label_notsig <- unlist(strsplit(opt$llabs, split=","))[2]
+label_up <- unlist(strsplit(opt$llabs, split=","))[3]
+colours <- setNames(c("cornflowerblue","grey","firebrick"),c(label_down,label_notsig,label_up))
+
+results <- mutate(results, sig=ifelse((fdr<opt$signif_thresh & logFC>opt$lfc_thresh), label_up, ifelse((fdr<opt$signif_thresh & logFC < -opt$lfc_thresh),label_down, label_notsig)))
+results <- results[order(results$Pvalue),]
+if (!is.null(opt$label_file)) {
+    labelfile <- read.delim(opt$label_file)
+    tolabel <- filter(results, labels %in% labelfile[, 1])
+} else if (!is.null(opt$top_num)) {
+    tolabel <- filter(results, fdr<opt$signif_thresh) %>% top_n(opt$top_num)
+} else {
+    tolabel <- filter(results, fdr<opt$signif_thresh)
+}
+
+pdf("out.pdf")
+p <- ggplot(results, aes(logFC, -log10(Pvalue))) +
+    geom_point(aes(col=sig)) +
+    geom_label_repel(data=tolabel, aes(label=labels, fill=factor(sig)), colour="white", segment.colour="black", show.legend=FALSE) +
+    scale_color_manual(values=colours) +
+    scale_fill_manual(values=colours) +
+    theme(panel.grid.major = element_blank(), 
+        panel.grid.minor = element_blank(),
+        panel.background = element_blank(),
+        axis.line = element_line(colour = "black"),
+        legend.key=element_blank())
+if (!is.null(opt$title)) {
+    p <- p + ggtitle(opt$title)
+}
+if (!is.null(opt$xlab)) {
+    p <- p + xlab(opt$xlab)
+}
+if (!is.null(opt$ylab)) {
+    p <- p + ylab(opt$ylab)
+}
+if (!is.null(opt$legend)) {
+    p <- p + labs(colour=opt$legend)
+} else {
+    p <- p + labs(colour="")
+}
+
+print(p)
+dev.off()
+
+cat("Session information:\n\n")
+sessionInfo()
\ No newline at end of file
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/volcanoplot.xml	Tue Oct 23 06:57:26 2018 -0400
@@ -0,0 +1,135 @@
+<tool id="volcanoplot" name="Volcano Plot" version="0.0.1">
+    <description>create a volcano plot</description>
+    <requirements>
+        <requirement type="package" version="3.0.0">r-ggplot2</requirement>
+        <requirement type="package" version="0.8.0">r-ggrepel</requirement>
+        <requirement type="package" version="0.7.6">r-dplyr</requirement>
+        <requirement type="package" version="1.20.2">r-getopt</requirement>
+    </requirements>
+    <version_command><![CDATA[
+echo $(R --version | grep version | grep -v GNU)", ggplot2 version" $(R --vanilla --slave -e "library(ggplot2); cat(sessionInfo()\$otherPkgs\$ggplot2\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", ggrepel version" $(R --vanilla --slave -e "library(ggrepel); cat(sessionInfo()\$otherPkgs\$ggrepel\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", dplyr version" $(R --vanilla --slave -e "library(dplyr); cat(sessionInfo()\$otherPkgs\$dplyr\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", getopt version" $(R --vanilla --slave -e "library(getopt); cat(sessionInfo()\$otherPkgs\$getopt\$Version)" 2> /dev/null | grep -v -i "WARNING: ")
+    ]]></version_command>
+    <command detect_errors="exit_code"><![CDATA[
+
+Rscript '${__tool_directory__}/volcanoplot.R'
+
+    -i '$input'
+    -a $fdr_col
+    -p $pval_col
+    -c $lfc_col
+    -l $label_col
+    -s $signif_thresh
+    -x $lfc_thresh
+    #if $labels.label_select == 'file':
+        -f '$labels.label_file'
+    #else if $labels.top_num:
+        -t $labels.top_num
+    #end if
+    #if $plot_options.title:
+        -T '$plot_options.title'
+    #end if
+    #if $plot_options.xlab:
+        -X '$plot_options.xlab'
+    #end if
+    #if $plot_options.ylab:
+        -Y '$plot_options.ylab'
+    #end if
+    #if $plot_options.legend:
+        -L '$plot_options.legend'
+    #end if
+    -z '$plot_options.legend_labs'
+
+]]></command>
+    <inputs>
+        <param name="input" type="data" format="tabular" label="Specify an input file" />
+        <param name="fdr_col" type="data_column" data_ref="input" label="FDR (adjusted P value)" />
+        <param name="pval_col" type="data_column" data_ref="input" label="P value (raw)" />
+        <param name="lfc_col" type="data_column" data_ref="input" label="Log Fold Change" />
+        <param name="label_col" type="data_column" data_ref="input" label="Labels" />
+        <param name="signif_thresh" type="float" max="1" value="0.05" label="Significance threshold" help="Default: 0.05"/>
+        <param name="lfc_thresh" type="float" value="0" label="LogFC threshold to colour" help="Default: 0"/>
+        <conditional name="labels">
+            <param name="label_select" type="select" label="Points to label" help="Select to label top significant points or input labels from file. All points meeting the significance threshold are labelled by default.">
+                <option value="signif" selected="True">Significant</option>
+                <option value="file">Input from file</option>
+            </param>
+            <when value="signif">
+                <param name="top_num" type="integer" optional="True" label="Only label top most significant" help="Specify the top number of points to label by P value significance"/>
+            </when>
+            <when value="file">
+                <param name="label_file" type="data" format="tabular" label="File of labels"/>
+            </when>
+        </conditional>
+        <section name="plot_options" expanded="false" title="Plot Options">
+            <param name="title" type="text" optional="True" label="Plot title"/>
+            <param name="xlab" type="text" optional="True" label="Label for x axis"/>
+            <param name="ylab" type="text" optional="True" label="Label for y axis"/>
+            <param name="legend" type="text" optional="True" label="Label for Legend Title"/>
+            <param name="legend_labs" type="text" value="Down,Not Sig,Up" label="Labels for Legend" help="Labels in the legend can be specified. Default: Down,Not Sig,Up"/>
+        </section>
+    </inputs>
+    <outputs>
+        <data name="plot" format="pdf" from_work_dir="out.pdf" label="Volcano plot on ${on_string}"/>
+    </outputs>
+    <tests>
+        <test>
+            <!-- Ensure default output works -->
+            <param name="input" ftype="tabular" value="input.tab"/>
+            <param name="fdr_col" value="4" />
+            <param name="pval_col" value="3" />
+            <param name="lfc_col" value="2" />
+            <param name="label_col" value="1" />
+            <param name="lfc_thresh" value="0" />
+            <output name="plot" value= "out.pdf" compare="sim_size" />
+        </test>
+        <test>
+            <!-- Ensure input labels and plot options work -->
+            <param name="input" ftype="tabular" value="input.tab"/>
+            <param name="fdr_col" value="4" />
+            <param name="pval_col" value="3" />
+            <param name="lfc_col" value="2" />
+            <param name="label_col" value="1" />
+            <param name="lfc_thresh" value="0" />
+            <param name="label_select" value="file"/>
+            <param name="label_file" ftype="tabular" value="labels.tab" />
+            <output name="plot" value= "out2.pdf" compare="sim_size" />
+        </test>
+    </tests>
+    <help><![CDATA[
+.. class:: infomark
+
+**What it does**
+
+This tool creates a Volcano plot using ggplot2. Points can be labelled via ggrepel.
+
+In statistics, a `Volcano plot`_ is a type of scatter-plot that is used to quickly identify changes in large data sets composed of replicate data. It plots significance versus fold-change on the y and x axes, respectively. These plots are increasingly common in omic experiments such as genomics, proteomics, and metabolomics where one often has a list of many thousands of replicate data points between two conditions and one wishes to quickly identify the most meaningful changes. A volcano plot combines a measure of statistical significance from a statistical test (e.g., a p value from an ANOVA model) with the magnitude of the change, enabling quick visual identification of those data-points (genes, etc.) that display large magnitude changes that are also statistically significant.
+
+A volcano plot is constructed by plotting the negative log of the p value on the y axis (usually base 10). This results in data points with low p values (highly significant) appearing toward the top of the plot. The x axis is the log of the fold change between the two conditions. The log of the fold change is used so that changes in both directions appear equidistant from the center. Plotting points in this way results in two regions of interest in the plot: those points that are found toward the top of the plot that are far to either the left- or right-hand sides. These represent values that display large magnitude fold changes (hence being left or right of center) as well as high statistical significance (hence being toward the top).
+
+Source: Wikipedia
+
+-----
+
+**Inputs**
+
+A tabular file with a header row containing the columns below (additional columns may be present):
+
+    * P value
+    * FDR / adjusted P value
+    * Log fold change
+    * Labels (e.g. Gene symbols or IDs)
+
+All points meeting the specified significance threshold will be labelled by default with the values in the Labels columns. Users can select to only label the top significant points under **Plot Options** or only to label certain points through providing a tabular labels file. The labels file must contin a header row and have the labels in the first column. These labels must match the labels in the main input file. If no labels are desired specify 0 for "Only label top most signifcant". If a log fold change (lfc) threshold is specified, points that meet the significance threshold and lfc threshold will be coloured red if upregulated and blue if downregulated.
+
+**Outputs**
+
+A PDF containing a Volcano plot like below.
+
+.. image:: $PATH_TO_IMAGES/volcano_plot.png
+
+.. _Volcano plot: https://en.wikipedia.org/wiki/Volcano_plot_(statistics)
+
+    ]]></help>
+    <citations>
+    </citations>
+</tool>
\ No newline at end of file