deepomicslab/SpecHLA

Issues

• DRB3 and DRB5

  #14 opened a year ago by bsb2014
  18

• Benchmarking HLA LOH calls on chr6 loss

  #44 opened 3 months ago by anabbi
  2

• use deep-variants calling too to replace longshot ?

  #38 opened 7 months ago by lidd77
  2

• Followed the readme step by step but got error with example data

  #43 opened 5 months ago by Fang-Kevin
  1

• Install error

  #42 opened 6 months ago by anabbi
  11

• complaining about dependencies / empty output files

  #29 opened 8 months ago by alisamatisse
  11

• Got different allele result for different IMGT version

  #41 opened 7 months ago by lidd77
  0

• Bug report : Cannot find sample.realign.sort.bam for long read typing

  #40 opened 7 months ago by lidd77
  0

• Reason for setting bias value for annoHLA.pl

  #39 opened 7 months ago by lidd77
  0

• what's the meanning of "interval_dict" in long_read_typing.py ?

  #30 opened 7 months ago by lidd77
  7

• how to assign read to gene ?

  #37 opened 7 months ago by lidd77
  1

• how to get hla_gen.format.filter.extend.DRB.no26789.fasta ?

  #31 opened 7 months ago by lidd77
  5

• Feature request

  #26 opened 8 months ago by Redmar-van-den-Berg
  7

• Index command fails but reports success

  #34 opened 8 months ago by Redmar-van-den-Berg
  1

• Couldn't run a test on example files of exon. I saw this error related to libtinfo.so.5: version `NCURSES_TINFO_5.0.19991023'

  #32 opened 8 months ago by jayminz
  6

• Typing long reads

  #33 opened 8 months ago by oumodavid1625
  7

• ExtractHLAread.sh

  #19 opened 8 months ago by vegetableyu
  5

• Question about minimap2 parameters in long_read_typing.py

  #28 opened 10 months ago by karoliinas
  15

• Low confidence result for all HLA genes

  #27 opened 10 months ago by Carovanandel
  10

• HLA typing only based on long-read RNA-seq data?

  #25 opened 10 months ago by yuzhuxuyang
  2

• Identify somatic HLA mutation from SpecHLA

  #23 opened a year ago by LongpanUPC
  6

• Performace among Novoalign V4, V3 and Bowtie2 in read-binning step

  #24 opened a year ago by LongpanUPC
  2

• MICA and MICB

  #22 opened a year ago by SQ-Gao
  3

• ExtractHLAread.sh syntax errors.

  #20 opened a year ago by Kelly-ST-HRI
  4

• HLA typing with long-read data

  #17 opened a year ago by vegetableyu
  3

• Novoalign

  #18 opened a year ago by bsb2014
  1

• Null results for certain HLA loci

  #10 opened a year ago by Jwong684
  1

• full-length or exon typing

  #16 opened a year ago by bsb2014
  9

• Diploid asm

  #5 opened a year ago by bsb2014
  2

• Novel alleles

  #15 opened a year ago by bsb2014
  4

• Install probelm

  #13 opened a year ago by bsb2014
  1

• Errors when running SpecHLA.sh

  #12 opened a year ago by bsb2014
  5

• BWA or bowtie2

  #11 opened a year ago by bsb2014
  1

• Possibility to Update and Display IMGT/HLA Database Version in Output

  #7 opened a year ago by joaohccampos
  3

• Question about ploidy for LOH

  #9 opened a year ago by Jwong684
  2

• multithreading does not work

  #8 opened a year ago by Cimorgh-IT
  3

• Cwd.c: loadable library and perl binaries are mismatched

  #6 opened a year ago by RTCarmo
  1

• Publication for SpecHLA

  #3 opened 3 years ago by NTNguyen13
  3

• no result for SpecHLA_single

  #1 opened a year ago by hmyh1202
  11

• NGS Whole genome pipeline hang at run.assembly.realign.sh

  #4 opened 2 years ago by NTNguyen13
  1

• [help] simulate TGS

  #2 opened 3 years ago by hmyh1202
  1