Merge pull request #28 from getzlab/cluster_segments_bug

Fix bug in cluster_segments found while testing on CPTAC data.  This …

Update deTiN_aSCNA_based_estimate.py

Changing centroids to a list in the case of number of segments < 3.

Merge branch 'master' of https://github.com/broadinstitute/deTiN

adding aSCNA cluster selection based on SSNV estimate and converting …

…computations of aSCNA likelihood to log space to prevent over/underflows in the future

adding in tumor_f_star column for CGA pipeline (the column remains op…

…tional)

adding a small fix so that exp_f allele fractions can't exceed 1. Thi…

…s occurs when the CN model from GATK4 is not well calibrated

adding fix to deTiN related to very few cites again causing underflow…

…s in the zero TiN likelihood model

fixing removal of M1 KEEP sites due to high ExAC af and correcting ed…

…ge case where TiN model and null model both underflow

Merge branch 'master' of https://github.com/broadinstitute/deTiN

adding in output N SNPs recovered by deTiN