Mercurial > repos > artbio > probecoverage
changeset 4:daec4df60281 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/probecoverage commit 2b4a222804a40730abdaec6fb6aefc2295e89e11
| author | artbio |
|---|---|
| date | Sun, 24 Sep 2017 18:10:12 -0400 |
| parents | 4f744d3aaf0b |
| children | 2ec6529e555d |
| files | probecoverage.r probecoverage.xml test-data/graph_pysam.pdf |
| diffstat | 3 files changed, 7 insertions(+), 2 deletions(-) [+] |
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--- a/probecoverage.r Sun Sep 24 14:47:11 2017 -0400 +++ b/probecoverage.r Sun Sep 24 18:10:12 2017 -0400 @@ -40,7 +40,12 @@ ## end of function ## let's do a dataframe before plotting -maxdepth <- trunc(max(Table[,5:length(Table)]/(Table$end-Table$start))) + 20 +if (args$method == 'bedtools') { + maxdepth <- trunc(max(Table[,5:length(Table)]/(Table$end-Table$start))) + 20 + } else { + maxdepth <- trunc(max(Table[,5:length(Table)])) + 20 + } + graphpoints <- data.frame(1:maxdepth) i <- 5 for (colonne in colnames(Table)[5:length(colnames(Table))]) {
--- a/probecoverage.xml Sun Sep 24 14:47:11 2017 -0400 +++ b/probecoverage.xml Sun Sep 24 18:10:12 2017 -0400 @@ -1,4 +1,4 @@ -<tool id="probecoverage" name="Probe Coverage" version="0.4.0"> +<tool id="probecoverage" name="Probe Coverage" version="0.4.1"> <description></description> <requirements> <requirement type="package" version="1.4.1">samtools</requirement>