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Author Commit Message Date Builds
25 commits behind master.
Roland Schwarz
minor changes
Marina Petkovic
given a tree, extracts node CNPs
Roland Schwarz
major update with new FST
Tom Watkins
new version, requires placeholder purity file
Roland Schwarz
deleted copy of encode and minimize
Roland Schwarz
updated README, renamed edit distance folder
Roland Schwarz
rework of devel branch part 1
Roland Schwarz
merged medicc devel and fst framework
Roland Schwarz
updated readme
Roland Schwarz
modified zip
Roland Schwarz
added check for diploid in MEDICCquant
Roland Schwarz
fixed CHR_SEPARATOR import
Roland Schwarz
fix cna caplitalisation problem
Roland Schwarz
clean up
Tom Watkins
debugging plotting
Tom Watkins
get allelic imbalance per chromosome
Tom Watkins
removed incomplete alternative ref selection work
Tom Watkins
resolved merge
Tom Watkins
save incomplete work before moving to txscratch
Tom Watkins
transfering work to txscratch as have set up virtual envs
Roland Schwarz
merge
Roland Schwarz
minor change to trunnormlog signature
Tom Watkins
sequencing phasing version + germline loh snp detection
Tom Watkins
Added in different sigmas for phasing sequencing data based on respective read depths of snps and ability to identify deleterious germline snps preserved in regions of ubiquitous loh
Tom Watkins
Added different sigmas for sequencing read depth and ability to view germline SNPs preserved in regions of ubiquitous LOH
Roland Schwarz
some more small changes
Roland Schwarz
some fixes
Roland Schwarz
starting ascat port
Roland Schwarz
added writing routines
Roland Schwarz
some changes to phasing
Roland Schwarz
added example 6 with large cna
Roland Schwarz
enabled large CNAs up to CN 10 (a)
Roland Schwarz
added new markup readme
Roland Schwarz
rename readme
Roland Schwarz
cleaned up code, added asymmetric distance computation
Roland Schwarz
split medicc into phasing and reconstruction script