Commits

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Author Commit Message Labels Comments Date
Aaron Wong
Merge with main
Branches
counter_missing_zeros
Aaron Wong
Apply laplace smoothing consistently (whether regularization is used). This fixes a bug where datasets with alphas equal to zero (no regularizing) where not laplace smoothed.
Branches
counter_missing_zeros
Casey Greene
allow Data2DB to work with qdabs
Casey Greene
all changes merged into main
Branches
counter_missing_zeros
Casey Greene
merge counter context options
Casey Greene
merge aaron's changes
Casey Greene
Apply patch from @tjablin to build successfully without log4cpp. This closes issue #12.
Branches
counter_context_options
Chris Park
Added functionality in SVMperfer to turn off cross-validation. Useful for small training set size (e.g. 1 example)
Jian Zhou
merged several functions for dcor calculation.
Branches
counter_missing_zeros
Jian Zhou
Added Distance correlation measure to Distancer
Branches
counter_missing_zeros
Aaron Wong
Add documentation to Quantize method; modify BNUnraveler
Branches
counter_missing_zeros
Aaron Wong
Modified edges2posteriors with change in how missing edges are dealt with. removed -Z options which was never used
Branches
counter_missing_zeros
Aaron Wong
Added Quantize method that returns -1 for an edge if a gene is missing in a dataset
Branches
counter_missing_zeros
Aaron Wong
Added option in Counter to output log-ratios instead of posteriors during inference
Casey Greene
Merged in libsleipnir/sleipnir/counter_context_options (pull request #2)
Casey Greene
Apply patch from @tjablin to build successfully without log4cpp. This closes issue #12.
Casey Greene
update docs with SVMperf makefile
Branches
counter_context_options
Casey Greene
extract code repeats into function in cmeta
Branches
counter_context_options
Casey Greene
really doesn't need to be +x
Branches
counter_context_options
Casey Greene
fix indentation
Branches
counter_context_options
Casey Greene
update DChecker to use new auc calcs
Branches
counter_context_options
Casey Greene
update statistics.cpp for ubiquitous genes
Branches
counter_context_options
Casey Greene
match function declaration changes
Branches
counter_context_options
Casey Greene
make AUC calculations in DChecker match logic
Branches
counter_context_options
Casey Greene
Update Counter and DChecker to work with ubiquitous gene lists
Branches
counter_context_options
Casey Greene
open dabs as pcls when needed, but don't dramatically alter whitespace
Branches
counter_context_options
Casey Greene
roll back previous changes (whitespace issues)
Branches
counter_context_options
Casey Greene
open dabs as pcls when needed, but don't dramatically alter whitespace
Casey Greene
roll back previous changes (whitespace issues)
Casey Greene
allow pcl format to read dabs (on load, make symmetric pcl matrix)
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