C & S's Toolkit version 1.1.0

Version 1.1.0

1. Add new tools

Add bam-readcount2depth.pl, maftools.R, enhancedVolcano.R, complexHeatmap.R, upSet.R, ABSOLUTE.R, freec2segment.pl, SomaticSignatures.R, C-index.R and deconstructSigs.R

2. Modify existing tools

Add control of panel for tile.R
Add scale_fill_gradient2 for tile.R
Make testT.R capable of handling the case that when any of the input list contains only one observation
Make tile.R capable of seting angle of X lab with -xAngle
Make box.R and boxes.R capable of presenting Y-axis number in log-transform when using boxplot()
Make violine.R capable of controling fill
Make pie.R more user-friendly
Make box.R capable of filling color with identity
Make gpeFeature.pl output gene name
Revise help information of statistic.R
Change --minFR to --maxFR of vcfFilter.pl

3. Fix bugs

Fix bug of quantile.R by changing "arg = '-point'" to "arg == '-point'"
Fix a few bugs in line.R
Fix bug in vcfFilter.pl
Fix bug in testFisher.R by changing the separator of output from space to tab
Fix bugs of getMergedTrans() in pm/gpeParser.pm

4. Others

Add group excute permission
Change file type from dos to unix, including quantile.R etc.

C & S's Toolkit version 1.0.1

Version 1.0.1

1. Update README

2. Add more scripts

Add scripts: hive.pl, maf2AvTxt.pl, pslBestHits.pl, runSafe.sh, splicesite2Seq.pl and waitPid.sh

C & S's Toolkit version 1.0.0

Initial public release