Commits

Author Commit Message Labels Comments Date
mchikina
Added feature eliminations SVMfe.
mchikina
Moved GSL dependent files to the correct place in the Makefile
Qian Zhu
SeekReader: convert DAB/sparse dab to text-based matrix
Qian Zhu
Remove comments
Qian Zhu
Merge
Qian Zhu
created parameters for SeekMiner, SeekServer: - the number of threads - the fraction of genome a dataset should cover
YOUNG-SUK LEE
merge
YOUNG-SUK LEE
untrakced
YOUNG-SUK LEE
proper fetching dab files
Qian Zhu
Update SeekIterative
Qian Zhu
Merge
Qian Zhu
Added dataset weighting based on average-Z between query genes (SeekMiner)
Qian Zhu
make topological overlap calculation more efficient
Qian Zhu
Allowed SeekIterative to handle SEEK search integration from a collection of DAB files as opposed to CDatabase Added function to convert MI-based distance matrix generated by ARACNE to DAB (SeekReader) Added function to limit genes in a DAB file to the top hubby genes (SeekReader) Added topological overlap distance in seekwriter (to be eventually incorporated to Distancer)
Qian Zhu
Added function in SeekTest to allow statistical testing of gene sets from *.db files. Added debugging function in SeekPrep
Qian Zhu
Added function in SeekEvaluator to test signficance of dataset weights of a query Added interface in SeekMiner to allow weighting by variance of query genes, or user-given weighting
Qian Zhu
Add debug code in seekcentral.cpp Update PCLServer, SeekMiner, SeekServer to allow reading CDatabaselets from multiple CDatabase's
Qian Zhu
Update DBCombiner doc
Qian Zhu
Merge
Qian Zhu
DBCombiner: Add support for CDatabase reorganization (eg transforming a 21000-file CDatabase to a 1000-file CDatabase, more genes per file) PCL2Bin: Fixed Bin-to-PCL conversion header bug
Qian Zhu
Fixed configure.ac bug created by 9b9c1e5 configure now works for Ubuntu with system-wide install of Boost
Casey Greene
Fixed hubber to return appropriate output. This should fix Issue #17 pending Arjun's testing.
Qian Zhu
Fixed bug in DBCombiner with regard to splitting/joining option
YOUNG-SUK LEE
updated svmperf documentation
Qian Zhu
Configure step: --with-boost=<path> is now recognized
arjunkrish
incendio configuration file
arjunkrish
Added two network normalization methods, an "absolute value" flag and corrected std.dev calculation for paircount in Dat2Dab
Qian Zhu
Temporary changes to SeekIterative
Qian Zhu
Added options to allow integrations of many coexpression networks
Qian Zhu
Merge
  1. Prev
  2. Next