rdemolgen/SavvySuite

Issues

• CoverageBinner seems to run and then does not produce output file

  #28 opened a month ago by becky-genomics
  2

• Compilation errors

  #27 opened 8 months ago by questcof
  8

• SelectControlSamples fails due to java.io.StreamCorruptedException

  #26 opened 9 months ago by TacModd
  3

• Compilation Errors and Warnings in SavvyCNVJointCaller.java

  #25 opened a year ago by Redwan468001
  1

• support for gatk v4

  #24 opened 2 years ago by joshuamschmidt
  1

• Add option to call CNVs for a subset of the samples

  #19 opened 4 years ago by exeter-matthew-wakeling
  0

• Chromosomes named other than a pure number are ignored.

  #18 opened 5 years ago by exeter-matthew-wakeling
  0

• How to cite the software ?

  #15 opened 5 years ago by hmyh1202
  1

• Software should not use excessive amounts of RAM

  #16 opened 5 years ago by exeter-matthew-wakeling
  1

• Compress the linkage data file

  #13 opened 5 years ago by exeter-matthew-wakeling
  0

• cannot compile new SavvyHomozygosity.MultiViterbi(currentChr); required: String,double found: String

  #10 opened 5 years ago by lindenb
  2

• CoverageBinner: duplicate, supplementary reads are not ignored ?

  #11 opened 5 years ago by lindenb
  0

• Add SavvyVcfHomozygosity and update other software

  #8 opened 7 years ago by exeter-matthew-wakeling
  0

• Help with Jama Library

  #7 opened 7 years ago by MariaAvylak
  1

• What is a "reasonable number of samples" for SavvyCNV?

  #6 opened 7 years ago by CarlosBorroto
  2

• Can't compile latest version

  #5 opened 7 years ago by oleraj
  5

• Exception when MAPQ unmapped read != 0

  #3 opened 7 years ago by ryanlayer
  2

• javac complains about deprecated code when compiling

  #2 opened 7 years ago by oleraj
  2

• Classpath documentation is confusing to non-Java users.

  #1 opened 7 years ago by exeter-matthew-wakeling
  0