qpalma.git
2008-03-10 fabio+ fixed bug in the index calculation of donor/acceptor...
2008-03-07 fabio+ changed training method to work with new dataset...
2008-03-06 fabio+ refactored compile dataset -> removed remaining redun...
2008-03-06 fabio+ fixed index of reads in filterReads
2008-03-05 fabio+ removed some obsolete variables
2008-03-05 fabio+ refactored code further
2008-03-05 fabio+ added small app to ease profiling
2008-02-28 fabio+ extended scripts
2008-02-27 fabio+ minor changes
2008-02-26 raetschgit-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
2008-02-26 fabio+ first running version of Evaluation script
2008-02-25 fabio+ performed some further refactoring
2008-02-25 fabio+ did some refactoring to reduce duplicated code
2008-02-25 fabio+ dataset size is smaller now (just storing indices).
2008-02-21 fabio+ added use of all remapped possibilities of a given...
2008-02-21 fabio+ fixed bug in the check for aligned dna fragments...
2008-02-21 fabio+ refactored code of dataset generation method
2008-02-18 fabio+ added code to allow for configuration
2008-02-12 fabio+ small script for plotting fraction of wrong reads...
2008-02-11 fabio+ model selection scripts are ready
2008-02-11 fabio+ added minor functionality pprinting ...
2008-02-11 fabio+ added basic scripts to generate runs for an experiment
2008-02-11 fabio+ added scripts for model selection on the cluster
2008-02-10 fabio+ changed filter behavior (tendency towards smaller...
2008-02-10 fabio+ fixed a bug in the filtering (forgot to disable remov...
2008-02-09 fabio+ fixed bug in the combination of reads with deletions
2008-02-09 fabio+ modified dataset generation in order to recalculate...
2008-02-09 fabio+ fixed bug in the filtering function (if read offset...
2008-02-09 fabio+ extended filtering to take indels [A-] resp. [-A...
2008-02-08 fabio+ fixed bug in the computeSpliceAlign... function
2008-02-08 fabio+ minor changes to filterReads
2008-02-07 fabio+ fixed uninitialised values
2008-02-07 fabio+ new version of the filterReads program
2008-02-07 fabio+ some fixes of the filterReads and parser functions
2008-02-06 fabio+ resolved an issue with the memory mapping in filterReads
2008-02-06 fabio+ rearranged code
2008-02-05 fabio+ extended dataset compilation function
2008-02-05 fabio+ minor bugfixes in the compile_dataset script
2008-02-04 fabio+ minor changes
2008-02-04 fabio+ modified filtering of reads
2008-02-02 fabio+ added script to generate datasets
2008-02-02 fabio+ added read structure for new parser
2008-01-31 fabio+ extended evaluation function to return positionwise...
2008-01-28 fabio+ removed duplicated code
2008-01-25 fabio+ renamed files
2008-01-25 fabio+ fix
2008-01-25 fabio+ renaming business
2008-01-25 fabiomerged training/prediction scripts
2008-01-25 fabio+ fix development stage before doing some refactoring
2008-01-25 fabio+ added exons read boundary output to filterReads output
2008-01-24 fabio+ minor fixes
2008-01-24 fabio+ resolved some index bugs concerning the intron bounda...
2008-01-23 fabio+ added splicesite scores to training
2008-01-23 fabio+ minor mods
2008-01-23 fabio+ changed output in the filterReads
2008-01-23 fabio+ restored functionality
2008-01-23 fabio+ svn file moving
2008-01-23 fabioannoying svn business
2008-01-23 fabio+ some changes concerning filter params
2008-01-23 fabio+ renamed main dir in order to create python module...
2008-01-23 fabio+ moved pythn data tools to new dir
2008-01-23 fabio+ small changes
2008-01-23 fabio+ check in latest changes
2008-01-22 fabio+ fixed bug in the label feature calculation
2008-01-22 fabio+ solved some issues with the data generation
2008-01-22 ongan example shows how to integrate into qpalma
2008-01-21 ongFirst try at splice site scores. Not yet integrated.
2008-01-21 fabio+ added some assertions concerning scores
2008-01-21 fabio+ added prediction script with evaluation functions...
2008-01-21 fabio+ fixed bug in the assertion whether scalar prod +...
2008-01-18 fabio+ added a toy data random generator
2008-01-17 fabio+ minor fixes
2008-01-17 fabio+ minor changes
2008-01-17 fabio+ found feature count bug in the quality scores
2008-01-16 ongused the last value of quality plifs to fill out the...
2008-01-16 fabio+ fixed matchmatrix for the quality case to be a 1x6...
2008-01-16 ongplot the parameter vector in a useful way
2008-01-16 fabio+ some minor fixes
2008-01-16 fabio+ added info file
2008-01-15 fabio+ fixded index bug in feature count
2008-01-15 fabio+ added some assertions
2008-01-15 fabio+ fixed Swig/python double free bug
2008-01-15 fabio+ fixed if/else cases bug in the increaseFeatureCount...
2008-01-14 fabio+ changed interface for decoded plif features -> direct...
2008-01-14 fabio+ disabled don/acc scores properly
2008-01-11 fabio+ modifications and bugfixes
2008-01-11 raetsch*** empty log message ***
2008-01-10 fabio+ fixed some index bugs in the c code
2008-01-09 fabio+ added fasta parser for TAIR7 sequences
2008-01-09 fabio+ restored old filtering functionality -> reads have...
2008-01-08 fabio+ minor changes
2008-01-08 fabio+ added feature calculation for the labels
2008-01-07 fabio+ changed reads combination in order to allow for overl...
2008-01-07 fabio+ parameter transfer to python layer works
2008-01-06 fabio+ added part of the feature calculation for the quality...
2007-12-30 fabio+ incorporated feature count for prb and chastity Plifs...
2007-12-29 fabio+ changed parameter transfer to support array of plifs
2007-12-28 fabio+ changed filter criteria
2007-12-22 fabio+ loosened filtering criterion
2007-12-22 fabio+ found bug which caused ~10 reads of overlap "0"
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