Mercurial > repos > drosofff > msp_sr_readmap_and_size_histograms
changeset 8:4e7f59d5ee18 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_sr_readmap_and_size_histograms commit e27d18d58ae095e7fad4b08b04370857a1d37964-dirty
| author | drosofff |
|---|---|
| date | Tue, 02 Feb 2016 11:50:13 -0500 |
| parents | 9784e5046f04 |
| children | 44a0b0fa52a9 |
| files | readmap.xml tool_dependencies.xml |
| diffstat | 2 files changed, 5 insertions(+), 4 deletions(-) [+] |
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--- a/readmap.xml Thu Nov 26 11:55:39 2015 -0500 +++ b/readmap.xml Tue Feb 02 11:50:13 2016 -0500 @@ -77,6 +77,7 @@ <param name="maxquery" type="integer" size="3" value="28" label="Max size of query small RNAs" help="'28' = 28 nucleotides"/> <param name="title" type="text" size="15" value= "Readmaps and size distributions" label="Main Titles"/> <param name="xlabel" type="text" size="15" value="Coordinates/read size" label="x axis label"/> + <param name="yrange" type="integer" size="6" value="0" label="y axis range" help="leave at 0 for autoscaling"/> <param name="ylabel" type="text" size="15" value="Number of reads" label="y axis label"/> <param name="rows_per_page" type="text" size="9" value="8" label="How many items to display per page?"> <validator type="in_range" min="6" max="20" message="Select between 6 and 20 rows, as the readability will suffer otherwise."/> @@ -127,8 +128,8 @@ smR.prepanel=function(x,y,...){; yscale=c(-max(abs(y)), max(abs(y)));list(ylim=yscale);} bc= barchart(count~as.factor(size)|factor(sample, levels=unique(sample))+gene, data = df, origin = 0, horizontal=FALSE, - group=polarity, - stack=TRUE, + group=polarity, + stack=TRUE, col=c('red', 'blue'), cex=0.75, scales=list(y=list(tick.number=4, rot=90, relation="free", cex=0.7), x=list(cex=0.7) ),
--- a/tool_dependencies.xml Thu Nov 26 11:55:39 2015 -0500 +++ b/tool_dependencies.xml Tue Feb 02 11:50:13 2016 -0500 @@ -7,10 +7,10 @@ <repository changeset_revision="ca10c522f37e" name="package_pysam_0_7_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="numpy" version="1.9"> - <repository changeset_revision="f9289486f06d" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="fc6f5ca8aef3" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="R" version="3.1.2"> - <repository changeset_revision="41f43a2064ba" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="1ca39eb16186" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="biocbasics" version="2.14"> <repository changeset_revision="d243626801e2" name="package_biocbasics_2_14" owner="mvdbeek" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />