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+ changed check for intial setting of old_w. (matrix != None does not work in cvxopt)
[qpalma.git] / tools /
2008-10-15 Fabio+ fixed alignment index calculation for negative strand tree | commitdiff
2008-10-14 Fabio+ extended test cases tree | commitdiff
2008-10-13 Fabio+ extended documentation tree | commitdiff
2008-09-01 fabio+ minor changes in the paths tree | commitdiff
2008-08-14 fabio+ added convenient script tree | commitdiff
2008-08-11 fabio+ found negative strand bug tree | commitdiff
2008-08-07 fabio+ fixed bug in position calculation for negative strand tree | commitdiff
2008-07-31 fabio+ fixed quality conversion: According to new specs... tree | commitdiff
2008-07-31 fabio+ modifications in order to use new data format / acces... tree | commitdiff
2008-07-04 fabio+ interesting version : it crashes but valgrind detects... tree | commitdiff
2008-07-04 fabio+ recalculating exons boundaries fixed tree | commitdiff
2008-07-04 fabio+ added reverse complementation to filter reads function tree | commitdiff
2008-07-03 fabio+ moved tools from training dataset generation to their... tree | commitdiff
2008-07-03 fabio+ saving changes in the dataset generation tree | commitdiff
2008-07-02 fabio+ some optimization tree | commitdiff
2008-06-24 fabio+ added small program for intron-position comparison tree | commitdiff
2008-06-20 fabio+ optimized dataset generation/storage tree | commitdiff
2008-05-30 fabio+ original reads sequence now has to be reconstructred... tree | commitdiff
2008-05-30 fabio+ added dataset generation function to dataset specific... tree | commitdiff
2008-05-30 fabio+ moved qpalma dataset generation scripts tree | commitdiff
2008-05-30 fabio+ added a script that processes the single lane files... tree | commitdiff
2008-05-30 fabio+ added some more scripts from the dataset processing tree | commitdiff
2008-05-30 fabio+ added small counting script tree | commitdiff
2008-04-22 fabio+ fix changes we made so far tree | commitdiff
2008-04-17 fabio+ updated filtering tree | commitdiff
2008-03-06 fabio+ fixed index of reads in filterReads tree | commitdiff
2008-03-05 fabio+ refactored code further tree | commitdiff
2008-02-11 fabio+ added scripts for model selection on the cluster tree | commitdiff
2008-02-10 fabio+ changed filter behavior (tendency towards smaller... tree | commitdiff
2008-02-10 fabio+ fixed a bug in the filtering (forgot to disable remov... tree | commitdiff
2008-02-09 fabio+ fixed bug in the combination of reads with deletions tree | commitdiff
2008-02-09 fabio+ fixed bug in the filtering function (if read offset... tree | commitdiff
2008-02-09 fabio+ extended filtering to take indels [A-] resp. [-A... tree | commitdiff
2008-02-08 fabio+ minor changes to filterReads tree | commitdiff
2008-02-07 fabio+ fixed uninitialised values tree | commitdiff
2008-02-07 fabio+ new version of the filterReads program tree | commitdiff
2008-02-07 fabio+ some fixes of the filterReads and parser functions tree | commitdiff
2008-02-06 fabio+ resolved an issue with the memory mapping in filterReads tree | commitdiff
2008-02-06 fabio+ rearranged code tree | commitdiff
2008-02-05 fabio+ extended dataset compilation function tree | commitdiff
2008-02-04 fabio+ minor changes tree | commitdiff
2008-02-04 fabio+ modified filtering of reads tree | commitdiff
2008-02-02 fabio+ added read structure for new parser tree | commitdiff
2008-01-28 fabio+ removed duplicated code tree | commitdiff
2008-01-25 fabio+ fix development stage before doing some refactoring tree | commitdiff
2008-01-25 fabio+ added exons read boundary output to filterReads output tree | commitdiff
2008-01-23 fabio+ added splicesite scores to training tree | commitdiff
2008-01-23 fabio+ minor mods tree | commitdiff
2008-01-23 fabio+ changed output in the filterReads tree | commitdiff
2008-01-23 fabio+ restored functionality tree | commitdiff
2008-01-23 fabio+ some changes concerning filter params tree | commitdiff
2008-01-23 fabio+ small changes tree | commitdiff
2008-01-22 fabio+ solved some issues with the data generation tree | commitdiff
2008-01-22 ongan example shows how to integrate into qpalma tree | commitdiff
2008-01-21 ongFirst try at splice site scores. Not yet integrated. tree | commitdiff
2008-01-16 ongused the last value of quality plifs to fill out the... tree | commitdiff
2008-01-16 fabio+ fixed matchmatrix for the quality case to be a 1x6... tree | commitdiff
2008-01-16 ongplot the parameter vector in a useful way tree | commitdiff
2008-01-09 fabio+ added fasta parser for TAIR7 sequences tree | commitdiff
2008-01-09 fabio+ restored old filtering functionality -> reads have... tree | commitdiff
2008-01-07 fabio+ changed reads combination in order to allow for overl... tree | commitdiff
2007-12-28 fabio+ changed filter criteria tree | commitdiff
2007-12-22 fabio+ loosened filtering criterion tree | commitdiff
2007-12-22 fabio+ found bug which caused ~10 reads of overlap "0" tree | commitdiff
2007-12-21 fabio+ added missing check for strand orientation tree | commitdiff
2007-12-20 fabio+ added support for writing in result file tree | commitdiff
2007-12-20 fabio+ optimized and fixed map file parser tree | commitdiff
2007-12-20 fabio+ compacted parser code tree | commitdiff
2007-12-19 fabio+ parser works now with mmap and sscanf tree | commitdiff
2007-12-19 fabio+ added processing function for reads tree | commitdiff
2007-12-18 fabio+ wrote faster parser / file processing tools in C tree | commitdiff
2007-12-17 fabio+ added python parsers for gff and solexa / read files tree | commitdiff
2007-12-12 fabio+ fixed a bug in the C++ interface tree | commitdiff
2007-12-11 fabio+ added small scripts for EST filtering tree | commitdiff
2007-12-10 fabio+ fixed some index bugs tree | commitdiff
2007-12-04 fabio+ removed several index bugs tree | commitdiff
2007-12-03 fabio+ rewrote C interface for SWIG/Python tree | commitdiff
QPalma the short reads alignment project