1. libsleipnir
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Author Commit Message Date Builds
Casey Greene
update acknowledgements for V3
Casey Greene
merge
Casey Greene
Documentation did not match ggo, change docs to match actual behavior
Jie Tan
fix weighted pearson w^2 instead of w being used in covariance
Casey Greene
remove stray cout
Casey Greene
Some metrics allow weighting, and Distancer had a .ggo option for weighting, but this never got passed in to the function to calculate the distance. Now this can be done using a file with a vector of weights similar to a quant file.
Casey Greene
roll back inadvertant changes to datapair
Casey Greene
fix stray hg clone in docs
Jian Zhou
Weighted context: DChecker cmdline files update
Jian Zhou
Merge
Jian Zhou
Weighted context: Added AUC calculation using weighted context for DChecker; Adjustments for reducing rounding error;
ms70
conditionally include svm library sources
ms70
reverting to correct branch error
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ms70
conditionally include svm library sources
Qian Zhu
Many changes: 1) Added SeekGeneRecommender for Gene Recommender algorithm taking as input PCL bin files 2) Added meta-correlation functionality to SeekMiner (option --correlation) 3) Changed default value of --per_q_required in SeekMiner to 0.0 (rather than 1.0) 4) Added option to square z-scores in SeekMiner (useful in conjunction with --score_cutoff, the SPELL algorithm)
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Casey Greene
Have configure look in stage/lib in addition to lib, so that a user can point to /usr/local/boost_1_51_0/ instead of the less intutive /usr/local/boost_1_51_0/stage/ for with-boost
Casey Greene
update boost docs, thanks Lenny Heath
Casey Greene
missed a step for svmperf
Casey Greene
merge
Casey Greene
caps errors with SVMperf
Casey Greene
update docs, update configure to work with new smile
Jian Zhou
Merge
Jian Zhou
Weighted context: update Counter cmdline files
Jian Zhou
Weighted context: fixed genome.cpp compile issue
Casey Greene
comment line causing compile error
Jian Zhou
Weighted context: Fixed the bug that weights could be overwriten by other contexts
Jian Zhou
Merge
Jian Zhou
Weighted context: Recale final counts (divide by WT_MULTIPLIER). Allow using Dat/Dab directly as weight input.
Chris Park
Added option to remove all edges that both gene come from a user input gene list
Chris Park
Adding new tool SVMperfing, this extends SVMperfer into pair space and allows multiple dabs as input data. Also added PCL2Bin takes in PCL files output by R.
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