Downloads

 

Software

Version

Download

APOLLOH

0.1.0 (used in manuscript submission) APOLLOH_0.1.0
0.1.1 APOLLOH_0.1.1.

DriverNet

1.0 DriverNet_1.0.0.
 available from Bioconductor

HMMCopy

0.1.1 HMMcopy_v0.1.1

MutationSeq

4.3.8 mutationSeq_4.3.8.zip

TITAN

  • TITANRunner Python pipeline, GC and map WIG files
  • TitanCNA R package is available on Bioconductor
0.0.1 TITANRunner-0.0.3TITANRunner-0.1.1

PyClone

  • Modified plot_cellular_frequencies to accept the `–file_format` flag which sets the output format for plot files.
 0.12.7 PyClone-0.12.7
  • Fixed bug in multi-sample plotting of allelic prevalences. Note this requires an upgrade to eppl 0.2.3 or greater.
 0.12.6 PyClone-0.12.6
  • Changed multi sample plot to show error bars
  • The `build_table` no outputs the std error of the cellular prevalence trace for each mutation in each sample
 0.12.5 PyClone-0.12.5
  •  Fixed bug in the multi-sample plotting/table code which caused failures for non PyClone densities.
 0.12.4 PyClone-0.12.4
  • Added ability to output table used for generating multi-sample plots
 0.12.3 PyClone-0.12.3

HMM-Dosage

0.1.0 HMMK11_0.1.0.tar

JointSNVMix

google code

deFuse

0.6.1 defuse-0.6.1
older versions sourceforge

SNVMix

0.11.8 SNVMix2-0.11.8-r5.
0.12 beta SNVMix2-0.12.2-rc1

CoNAn-SNV

0.11.9 SNVMixsuite

PostPy

0.1 beta PostPy