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+ got rid of some legacy code
[qpalma.git]
/
scripts
/
2008-10-08
Fabio
+ got rid of some legacy code
tree
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commitdiff
2008-10-07
Fabio
+ cleaned up directories
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commitdiff
2008-10-07
Fabio
+ renamed dyn_prog directory
tree
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commitdiff
2008-10-02
Fabio
+ added palma_utils file
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commitdiff
2008-10-02
Fabio
+ added sample configuration file
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commitdiff
2008-10-01
Fabio
+ fixed minor inconsistencies in the code
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commitdiff
2008-09-30
Fabio
+ combined two scripts that were responsible for genera...
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commitdiff
2008-09-29
Fabio
+ extended pipeline code
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commitdiff
2008-09-22
Fabio
+ added some documentary text
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commitdiff
2008-09-16
Fabio
+ added some text and references to the documentation
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commitdiff
2008-09-14
Fabio
+ added module to convert pickled predictions to severa...
tree
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commitdiff
2008-09-13
Fabio
fixed minor inconsistencies in the code (naming of...
tree
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commitdiff
2008-09-13
Fabio
+ moved file to module directory
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commitdiff
2008-09-13
Fabio
+ added framework code for training modus
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commitdiff
2008-09-13
Fabio
+ added paths for the dataset generation
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commitdiff
2008-09-11
Fabio
+ added dataset generation function for training set
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commitdiff
2008-09-10
Fabio
+ changed dataset compilation to support new framework
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commitdiff
2008-09-10
Fabio
+ got rid of minor bugs
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commitdiff
2008-09-10
Fabio
+ changed module hierarchy a bit
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commitdiff
2008-09-10
Fabio
+ added settings parser module
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commitdiff
2008-09-10
Fabio
+ added settings parser module
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commitdiff
2008-09-10
Fabio
+ added configuration file parsing and checking functions
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commitdiff
2008-09-09
Fabio
+ added settings in the form of a global and a run...
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commitdiff
2008-09-05
Fabio
+ added small parts to docu
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commitdiff
2008-09-02
Fabio
+ added license text
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commitdiff
2008-09-01
Fabio
+ got rid of some unneccessary code
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commitdiff
2008-09-01
Fabio
+ changed python and c code in order to perform easier...
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commitdiff
2008-09-01
Fabio
+ removed some obsolete dependencies
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commitdiff
2008-09-01
Fabio
+ added some docu
tree
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commitdiff
2008-09-01
fabio
+ minor changes in the paths
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commitdiff
2008-08-21
fabio
+ added raw framework of workflow
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commitdiff
2008-08-21
fabio
+ fixed bug in reads stemming from negative strand
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commitdiff
2008-08-11
fabio
+ found negative strand bug
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commitdiff
2008-08-07
fabio
+ fixed bug in position calculation for negative strand
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commitdiff
2008-08-06
fabio
+ minor mods in sequence_utils
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commitdiff
2008-08-05
fabio
+ higher level cluster tasks interface for qpalma
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commitdiff
2008-08-04
fabio
+ minor modifications for the prefetching the whole...
tree
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commitdiff
2008-07-31
fabio
+ fixed quality conversion: According to new specs...
tree
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commitdiff
2008-07-31
fabio
+ changed PipelinHeuristic to support new data access...
tree
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commitdiff
2008-07-29
fabio
+ adapted Lookup table to new data interface
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commitdiff
2008-07-29
fabio
+ fix version before moving to new format
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commitdiff
2008-07-10
fabio
+ modified Lookup table to work with negative strands
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commitdiff
2008-06-30
fabio
+ pruned a lot of import declarations
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commitdiff
2008-06-18
fabio
+ cleaning up scripts directory
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commitdiff
2008-06-18
fabio
+ added alignment reconstruction function
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commitdiff
2008-06-16
fabio
+ added two scripts for the psl2gff step
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commitdiff
2008-06-15
fabio
+ saving alignment information now in array container...
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commitdiff
2008-06-12
fabio
+ added selection option for alignment format
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commitdiff
2008-06-11
fabio
+ changed output format of alignment file script to...
tree
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commitdiff
2008-06-11
fabio
+ minor changes to support transcriptome data
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commitdiff
2008-06-05
fabio
+ fixed some bugs in the negative strand lookup table
tree
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commitdiff
2008-06-04
fabio
+ extended Lookup object to support negative strand
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commitdiff
2008-06-03
fabio
+ added script to parallelize QPalma heuristic on the...
tree
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commitdiff
2008-06-02
fabio
+ fix starting point for rewrite of data accession...
tree
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commitdiff
2008-05-30
fabio
+ shell script for the heuristic run
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commitdiff
2008-05-30
fabio
+ removed files
tree
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commitdiff
2008-05-30
fabio
+ minor changes
tree
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commitdiff
2008-05-30
fabio
+ moved sequence access functions to own module
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commitdiff
2008-05-26
fabio
+ minor changes
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commitdiff
2008-05-21
fabio
+ added script which draws the coverage bar plots prese...
tree
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commitdiff
2008-05-21
fabio
+ changed data loading procedures
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commitdiff
2008-05-14
fabio
+ take into account multiple hits per unique read
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commitdiff
2008-05-14
fabio
+ made original reads file location a parameter for...
tree
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commitdiff
2008-05-14
fabio
+ First fully working version.
tree
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commitdiff
2008-05-14
fabio
+ changed dataset compiler to take the two different...
tree
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commitdiff
2008-05-14
fabio
+ first version of a script that uses pythongrid
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commitdiff
2008-05-13
fabio
+ added configuration variables to main config file
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commitdiff
2008-05-13
fabio
+ sanity checks for the global config file
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commitdiff
2008-05-13
fabio
+ adapted training method to use new dataset standard
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commitdiff
2008-05-12
fabio
+ changed dataset representation
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commitdiff
2008-05-11
fabio
+ removed obsolete code
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commitdiff
2008-05-11
fabio
+ removed lot of redundant/old code from the dataset...
tree
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commitdiff
2008-04-22
fabio
+ fix changes we made so far
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commitdiff
2008-04-19
fabio
+ added faster evaluation function
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commitdiff
2008-04-19
fabio
+ fixed some index bugs in the evaluation
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commitdiff
2008-04-18
fabio
+ using new parsers now
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commitdiff
2008-04-18
fabio
+ changed code for prediction -> easier and faster
tree
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commitdiff
2008-04-18
fabio
+ fixed missing newlines in output
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commitdiff
2008-04-18
fabio
+ changed prediction
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commitdiff
2008-04-18
fabio
minor changes of paths
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commitdiff
2008-04-18
fabio
+ Lookup table checked for pos. strand
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commitdiff
2008-04-18
fabio
+ added wrapper class for prefetching of genomic sequen...
tree
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commitdiff
2008-04-18
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-18
raetsch
optimized heuristic
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commitdiff
2008-04-18
fabio
+ saving results in two files (spliced/unspliced)
tree
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commitdiff
2008-04-18
raetsch
heuristic seems to work well
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commitdiff
2008-04-18
fabio
+ added if statement to create numpy mat for unspliced...
tree
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commitdiff
2008-04-18
fabio
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-18
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-18
fabio
+ a slighlty better way to create a big dataset
tree
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commitdiff
2008-04-18
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-18
fabio
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-18
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-18
fabio
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-17
fabio
works soso
tree
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commitdiff
2008-04-17
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-17
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-17
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-17
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
tree
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commitdiff
2008-04-17
raetsch
git-svn-id: svn.tuebingen.mpg.de/ag-raetsch/projects...
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commitdiff
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