Mercurial > repos > artbio > deseq2_normalization

annotate deseq2_normalization.xml @ 0:6b990f6c6ba9 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
author artbio
date Mon, 08 Jan 2018 04:21:24 -0500
parents
children ca845e480c89
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
1 <tool id="deseq2_normalization" name="DESeq2 normalization" version="1.0.0">
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
2 <description>of hit lists (geometric method)</description>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
3 <requirements>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
4 <requirement type="package" version="1.8.2gx=r3.2.1_0">bioconductor-deseq2</requirement>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
5 </requirements>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
6 <stdio>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
7 <exit_code range="1:" level="fatal" description="Tool exception" />
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
8 </stdio>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
9 <command detect_errors="exit_code"><![CDATA[ Rscript $normalizationDESeq ]]></command>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
10 <configfiles>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
11 <configfile name="normalizationDESeq">
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
12 ## Setup R error handling to go to stderr
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
13 options( show.error.messages=F, error = function () { cat( geterrmessage(), file=stderr() ); q( "no", 1, F ) } )
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
14 suppressMessages(require(DESeq2))
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
15 countsTable = read.delim("${input}", header=TRUE, check.names=FALSE)
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
16 rownames( countsTable )= countsTable[,1]
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
17 countsTable= countsTable[ , -1 ]
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
18 conds = factor(c(rep ("C", length(countsTable[1,])-1 ), "T"))
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
19 cds = DESeqDataSetFromMatrix(countsTable, DataFrame(conds), ~ conds)
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
20 cds = estimateSizeFactors( cds )
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
21 write.table (as.data.frame(sizeFactors(cds)), file="${output_factors}", row.names=TRUE, col.names=TRUE, quote= FALSE, dec = ".", sep = "\t", eol = "\n")
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
22 norm_table = as.data.frame(counts( cds, normalized=TRUE ))
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
23 norm_table = cbind(rownames(norm_table), norm_table)
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
24 colnames(norm_table) = c("gene", colnames(countsTable) )
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
25 write.table (norm_table, file="${norm_hit_table}", row.names=FALSE, col.names=TRUE, quote= FALSE, dec = ".", sep = "\t", eol = "\n")
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
26 </configfile>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
27 </configfiles>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
28 <inputs>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
29 <param name="input" type="data" format="tabular" label="Hit lists of items"/>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
30 </inputs>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
31 <outputs>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
32 <data name="output_factors" format="tabular" label="Normalization Factors (Geometric mean method)" />
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
33 <data name="norm_hit_table" format="tabular" label="Normalized Hit Table (Geometric mean method)" />
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
34 </outputs>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
35 <tests>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
36 <test>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
37 <param name="input" value="counts.tab" ftype="tabular"/>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
38 <output name="output_factors" file="norm_factors.tab" ftype="tabular"/>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
39 <output name="norm_hit_table" file="norm_table.tab" ftype="tabular"/>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
40 </test>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
41 </tests>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
42 <help>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
43
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
44 **What it does**
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
45
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
46 DESeq2_normalization takes a tabular table of raw read counts (integers), each column corresponding to a sample count,
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
47 and returns (1) the DESeq2 Size Factors (geometic mean method) and (2) a normalized table (floatting number)
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
48 of counts.
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
49
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
50 **Inputs**
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
51
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
52 The following table gives an example of the tabular input that has to be provided to the tool:
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
53
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
54 <![CDATA[
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
55
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
56 Geneid Oocyte 1 Oocyte 2 Pronuclei 1 pronuclei 2
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
57
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
58 NM_001195025 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
59
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
60 NM_028778 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
61
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
62 NM_001290393 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
63
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
64 NM_008922 3133 2276 2288 2659
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
65
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
66 NM_175370 4 22 7 16
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
67
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
68 NM_001290390 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
69
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
70 NM_175642 977 1711 1013 459
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
71
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
72 NM_001290392 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
73
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
74 NM_027671 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
75
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
76 NM_178884 0 0 0 2
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
77
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
78 NM_199021 332 413 1436 836
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
79
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
80 NM_198680 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
81
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
82 NM_011465 0 4 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
83
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
84 NM_130890 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
85
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
86 NM_001113393 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
87
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
88 NM_001113392 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
89
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
90 NM_001113391 19 3 88 15
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
91
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
92 NM_031162 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
93
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
94 NR_103716 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
95
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
96 NM_001160371 0 0 0 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
97
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
98 NM_177834 1 3 2 0
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
99
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
100 NM_145381 606 445 367 306
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
101
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
102 ]]>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
103
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
104
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
105 </help>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
106 <citations>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
107 <citation type="doi">10.1186/s13059-014-0550-8</citation>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
108 </citations>
6b990f6c6ba9 planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/deseq2_normalization commit 9dfb5a5331b87d213f495febbfccff0f54becb73
artbio
parents:
diff changeset
109 </tool>