TimD1/vcfdist

Issues

• Vcfdist requires too much memory when using VCF with SVs included

  #34 opened 2 months ago by rickymagner
  3

• Switch and Flip Error rates

  #33 opened 2 months ago by rickymagner
  5

• time issue

  #32 opened 2 months ago by aaaniich
  2

• Unexpected FN&FP

  #31 opened 3 months ago by yangao07
  4

• command terminated by signal 9

  #30 opened 5 months ago by csuzhang
  2

• Inconsistent classification of same variant

  #29 opened 6 months ago by mbhall88
  2

• Contig not in reference FASTA or position out of range (generate_str)

  #28 opened 6 months ago by mbhall88
  2

• Very high memory usage when realigning

  #27 opened 8 months ago by mbhall88
  5

• QUERY_TP and precision calculations

  #26 opened 8 months ago by sq101
  3

• Unphased evaluation?

  #25 opened 9 months ago by rlorigro
  4

• Cannot start an already-running timer (writing)

  #24 opened 9 months ago by mcolpus
  1

• analysis-v2 questions

  #16 opened 9 months ago by ACEnglish
  4

• Variant is same as truth, but assigned truth FN and query FP

  #22 opened 9 months ago by mbhall88
  9

• Fix incredibly rare edge case when assigning credit to variants at same position

  #13 opened 9 months ago by TimD1
  1

• Contig not in truth

  #19 opened 10 months ago by mbhall88
  2

• Bioconda package

  #17 opened 10 months ago by mbhall88
  4

• No logging colours if writing to file

  #20 opened 10 months ago by mbhall88
  1

• Add bcftools to docker image

  #21 opened 10 months ago by mbhall88
  3

• A few minor (but quality-of-life) improvements, some questions too

  #18 opened 10 months ago by GuillaumeHolley
  5

• precision-recall-summary.tsv formatting

  #15 opened a year ago by nate-d-olson
  3

• Allow users to select variants using FILTER column

  #9 opened a year ago by TimD1
  0

• Incorrect ploidy detection for chrUN* ctgs

  #12 opened a year ago by TimD1
  0

• What about hap.py xcmp?

  #3 opened 2 years ago by jdidion
  4

• How does it deal with sex chromosomes?

  #2 opened 2 years ago by jdidion
  7

• Handle all possible input alleles

  #10 opened 2 years ago by TimD1
  0

• Supercluster output in truth.tsv and query.tsv incorrect

  #11 opened 2 years ago by TimD1
  0

• "terminate called after throwing an instance of 'std::out_of_range'"

  #8 opened 2 years ago by MariaNattestad
  2

• Errors during `make`

  #7 opened 2 years ago by MariaNattestad
  3

• Infinite loop during backtracking in rare cases

  #6 opened 2 years ago by TimD1
  0

• Support stratified variant comparison

  #4 opened 2 years ago by jdidion
  4

• Document the format of the output file

  #5 opened 2 years ago by jdidion
  0

• Compile error on Ubuntu

  #1 opened 2 years ago by jdidion
  1