Mercurial > repos > crs4 > exomedepth

annotate exomedepth.xml @ 7:45af4a9748cf draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
author iuc
date Fri, 08 Nov 2019 13:25:44 -0500
parents 165732ee5a48
children 5d60331757d3
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
7
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
1 <tool id="exomedepth" name="ExomeDepth" version="1.1.0">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
2 <description>Calls copy number variants (CNVs) from targeted sequence data</description>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
3 <requirements>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
4 <requirement type="package" version="1.1.10">r-exomedepth</requirement>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
5 </requirements>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
6 <version_command><![CDATA[
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
7 echo $(R --version | grep version | grep -v GNU)", ExomeDepth version" $(R --vanilla --slave -e "library(ExomeDepth); cat(sessionInfo()\$otherPkgs\$ExomeDepth\$Version)")
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
8 ]]></version_command>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
9 <command detect_errors="exit_code"><![CDATA[
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
10 Rscript '${__tool_directory__}/exomedepth.R' '$args_file'
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
11 ]]></command>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
12 <configfiles>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
13 <configfile name="args_file"><![CDATA[
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
14 target=$targetFile
3
88b89f435f6a Uploaded
crs4
parents:
diff changeset
15 test_vs_ref=$test_vs_ref
88b89f435f6a Uploaded
crs4
parents:
diff changeset
16 #for $i in $inputs
88b89f435f6a Uploaded
crs4
parents:
diff changeset
17 bam=${i.input}
88b89f435f6a Uploaded
crs4
parents:
diff changeset
18 bam_bai=${i.input.metadata.bam_index}
88b89f435f6a Uploaded
crs4
parents:
diff changeset
19 #if str($i.label.value) != "":
88b89f435f6a Uploaded
crs4
parents:
diff changeset
20 bam_label=${$i.label.value}
88b89f435f6a Uploaded
crs4
parents:
diff changeset
21 #else
88b89f435f6a Uploaded
crs4
parents:
diff changeset
22 bam_label=${i.input.dataset.name}
88b89f435f6a Uploaded
crs4
parents:
diff changeset
23 #end if
88b89f435f6a Uploaded
crs4
parents:
diff changeset
24 #end for
88b89f435f6a Uploaded
crs4
parents:
diff changeset
25 trans_prob=$transition_probability
88b89f435f6a Uploaded
crs4
parents:
diff changeset
26 output=$output
7
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
27 ]]></configfile>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
28 </configfiles>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
29 <inputs>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
30 <param name="targetFile" type="data" format="bed" label="Target regions (BED)">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
31 <validator type="unspecified_build" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
32 </param>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
33 <param name="test_vs_ref" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="false" label="Call CNVs using 1st sample as test" help="If checked, the tool will call CNVs in the first sample vs all the others. If unchecked, an all vs all CNV call will be performed" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
34 <repeat name="inputs" title="BAM" min="2" help="Need to add more files? Use controls below.">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
35 <param name="input" type="data" format="bam" label="BAM file">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
36 <options>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
37 <filter type="data_meta" ref="targetFile" key="dbkey"/>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
38 </options>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
39 </param>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
40 <param name="label" type="text" size="30" value="" label="Label" help="Label to use in the output. If not given, the dataset name will be used instead">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
41 <validator type="regex" message="Spaces are not allowed">^\S*$</validator>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
42 </param>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
43 </repeat>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
44 <param name="transition_probability" size="10" type="float" value="0.0001" label="Transition probability" help="Transition probability of the hidden Markov Chain from the normal copy number state to either a deletion or a duplication. The default value (0.0001) expects approximately 20 CNVs genome-wide" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
45 </inputs>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
46 <outputs>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
47 <data name="output" format="tabular" label="${tool.name} on ${on_string}" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
48 </outputs>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
49 <tests>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
50 <test>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
51 <param name="targetFile" value="CNV_TruSeq_Chr2.bed" dbkey="hg19" ftype="bed"/>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
52 <param name="test_vs_ref" value="True"/>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
53 <repeat name="inputs">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
54 <param name="input" value="CNV_case_small.bam"/>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
55 </repeat>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
56 <repeat name="inputs">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
57 <param name="input" value="CNV_control_small.bam"/>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
58 </repeat>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
59 <param name="transition_probability" value="0.5"/>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
60 <output name="output">
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
61 <assert_contents>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
62 <has_text text="chr2" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
63 <has_text text="97890544" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
64 <has_text text="97890616" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
65 <has_text text="deletion" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
66 <has_text text="CNV_case_small" />
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
67 </assert_contents>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
68 </output>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
69 </test>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
70 </tests>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
71 <help><![CDATA[
3
88b89f435f6a Uploaded
crs4
parents:
diff changeset
72 .. class:: warningmark
88b89f435f6a Uploaded
crs4
parents:
diff changeset
73
88b89f435f6a Uploaded
crs4
parents:
diff changeset
74 **Warning about counts for chromosome X**
88b89f435f6a Uploaded
crs4
parents:
diff changeset
75
88b89f435f6a Uploaded
crs4
parents:
diff changeset
76 Calling CNVs on the X chromosome can create issues if the exome sample of interest and the reference exome
88b89f435f6a Uploaded
crs4
parents:
diff changeset
77 samples it is being compared to are not gender matched.
88b89f435f6a Uploaded
crs4
parents:
diff changeset
78 Make sure that the genders are matched properly (i.e. do not use male as a reference for female
88b89f435f6a Uploaded
crs4
parents:
diff changeset
79 samples and vice versa).
88b89f435f6a Uploaded
crs4
parents:
diff changeset
80
88b89f435f6a Uploaded
crs4
parents:
diff changeset
81 **What it does**
88b89f435f6a Uploaded
crs4
parents:
diff changeset
82
88b89f435f6a Uploaded
crs4
parents:
diff changeset
83 This tool uses ExomeDepth to call copy number variants (CNVs) from targeted sequence data.
88b89f435f6a Uploaded
crs4
parents:
diff changeset
84
88b89f435f6a Uploaded
crs4
parents:
diff changeset
85 **Output format**
88b89f435f6a Uploaded
crs4
parents:
diff changeset
86
88b89f435f6a Uploaded
crs4
parents:
diff changeset
87 =========== ========================
88b89f435f6a Uploaded
crs4
parents:
diff changeset
88 Column Description
88b89f435f6a Uploaded
crs4
parents:
diff changeset
89 ----------- ------------------------
88b89f435f6a Uploaded
crs4
parents:
diff changeset
90 chr Chromosome
88b89f435f6a Uploaded
crs4
parents:
diff changeset
91 start Start of CNV region
88b89f435f6a Uploaded
crs4
parents:
diff changeset
92 end End of CNV region
88b89f435f6a Uploaded
crs4
parents:
diff changeset
93 type CNV type (deletion, duplication)
88b89f435f6a Uploaded
crs4
parents:
diff changeset
94 sample Name of the sample with CNV
88b89f435f6a Uploaded
crs4
parents:
diff changeset
95 corr Correlation between reference and test counts. To get meaningful result, this correlation should really be above 0.97. If this is not the case, consider the output of ExomeDepth as less reliable (i.e. most likely a high false positive rate)
88b89f435f6a Uploaded
crs4
parents:
diff changeset
96 nexons Number of target regions covered by the CNV
88b89f435f6a Uploaded
crs4
parents:
diff changeset
97 BF Bayes factor. It quantifies the statistical support for each CNV. It is in fact the log10 of the likelihood ratio of data for the CNV call divided by the null (normal copy number). The higher that number, the more confident one can be about the presence of a CNV. While it is difficult to give an ideal threshold, and for short exons the Bayes Factor are bound to be unconvincing, the most obvious large calls should be easily flagged by ranking them according to this quantity
88b89f435f6a Uploaded
crs4
parents:
diff changeset
98 reads.ratio Observed/expected reads ratio
88b89f435f6a Uploaded
crs4
parents:
diff changeset
99 =========== ========================
88b89f435f6a Uploaded
crs4
parents:
diff changeset
100
88b89f435f6a Uploaded
crs4
parents:
diff changeset
101
88b89f435f6a Uploaded
crs4
parents:
diff changeset
102 **What ExomeDepth does and does not do**
88b89f435f6a Uploaded
crs4
parents:
diff changeset
103
88b89f435f6a Uploaded
crs4
parents:
diff changeset
104 ExomeDepth uses read depth data to call CNVs from exome sequencing experiments. A key idea is that the test
88b89f435f6a Uploaded
crs4
parents:
diff changeset
105 exome should be compared to a matched aggregate reference set. This aggregate reference set should combine
88b89f435f6a Uploaded
crs4
parents:
diff changeset
106 exomes from the same batch and it should also be optimized for each exome. It will certainly differ from one exome
88b89f435f6a Uploaded
crs4
parents:
diff changeset
107 to the next.
88b89f435f6a Uploaded
crs4
parents:
diff changeset
108
88b89f435f6a Uploaded
crs4
parents:
diff changeset
109 Importantly, ExomeDepth assumes that the CNV of interest is absent from the aggregate reference set. Hence
88b89f435f6a Uploaded
crs4
parents:
diff changeset
110 related individuals should be excluded from the aggregate reference. It also means that ExomeDepth can miss
88b89f435f6a Uploaded
crs4
parents:
diff changeset
111 common CNVs, if the call is also present in the aggregate reference. ExomeDepth is really suited to detect rare
88b89f435f6a Uploaded
crs4
parents:
diff changeset
112 CNV calls (typically for rare Mendelian disorder analysis).
88b89f435f6a Uploaded
crs4
parents:
diff changeset
113
88b89f435f6a Uploaded
crs4
parents:
diff changeset
114 The ideas used in this package are of course not specific to exome sequencing and could be applied to other
88b89f435f6a Uploaded
crs4
parents:
diff changeset
115 targeted sequencing datasets, as long as they contain a sufficiently large number of exons to estimate the parameters
88b89f435f6a Uploaded
crs4
parents:
diff changeset
116 (at least 20 genes, say, but probably more would be useful). Also note that PCR based enrichment studies are often
88b89f435f6a Uploaded
crs4
parents:
diff changeset
117 not well suited for this type of read depth analysis. The reason is that as the number of cycles is often set to a high
88b89f435f6a Uploaded
crs4
parents:
diff changeset
118 number in order to equalize the representation of each amplicon, which can discard the CNV information.
7
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
119 ]]></help>
3
88b89f435f6a Uploaded
crs4
parents:
diff changeset
120 <citations>
7
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
121 <citation type="doi">10.1093/bioinformatics/btu135</citation>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
122 <citation type="doi">10.1093/bioinformatics/bts526</citation>
45af4a9748cf "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/exomedepth commit 91a0182476a7fc26be7bef1677790518c4e88348"
iuc
parents: 6
diff changeset
123 </citations>
3
88b89f435f6a Uploaded
crs4
parents:
diff changeset
124 </tool>