USeq Source Code

Brought to you by: biotelerock, bmilash, elainegee, scourdy, tmosbruger

Source Code Commit Log

Commit	Date
[r258] by biotelerock Lots of mods to Telescriptor and related classes. Updated DRDS with patch for bad DESeq2 rLog method call.	2014-09-18 21:37:05	Tree
[r257] by tmosbruger 1. STP bug fix	2014-09-12 23:50:52	Tree
[r256] by biotelerock Latest release notes	2014-09-09 17:03:49	Tree
[r255] by biotelerock Adding in changes for Misc and Num.	2014-09-09 17:03:15	Tree
[r254] by tmosbruger 1. TomatoFarmer updates 2. SamTranscriptomeParser a) Attempts to report actual chromsome length uses input file header. b) If the chromosome length cannot be found in the input file header, the app will report the last observed position in the chromosome (previous bevior). I c) @RG and @PG lines from input file are maintained 3. AlignmentEndTrimmer: a) Supports hard-clip cigar tag b) Incorporated most recent picard API, which cleaned up some sam validation errors c) Now uses the IH tag to help match pairs when multiple alignments are reported per read. 4) ExportExons a) Exon are named based on gene strand.	2014-09-08 14:26:32	Tree
[r253] by biotelerock Lots of modifications to the Telescriptor app	2014-09-05 21:24:38	Tree
[r252] by biotelerock Telescriptor changes.	2014-08-26 22:08:39	Tree
[r251] by biotelerock More static methods....	2014-08-26 22:08:22	Tree
[r250] by biotelerock Fixed a warning message related to exon size, added methods related to strand.	2014-08-26 22:06:13	Tree
[r249] by biotelerock Mods to support the Telescriptor....	2014-08-26 22:03:54	Tree

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