RabadanLab/arcasHLA

Issues

• Unexpected Explained Reads Calculation

  #139 opened 10 days ago by ddemelfi
  0

• pseudoalignments.tsv error

  #134 opened 5 months ago by Bondada20
  3

• IMGT/HLA version 3.56.0 and onwards provides large files as zip files

  #133 opened 7 months ago by Carovanandel
  2

• new version of kallisto outputs have changed

  #138 opened 2 months ago by katahdin0
  0

• No HLA name file

  #130 opened 7 months ago by arghdan
  1

• samtools and kallisto versions not found

  #137 opened 3 months ago by arusa
  2

• Failure to check exit codes of run_command causes a hang

  #135 opened 4 months ago by pshaughn
  0

• TypeError: only integer scalar arrays can be converted to a scalar index

  #126 opened 9 months ago by Weiyifan
  1

• Error in customize function

  #79 opened 3 years ago by ttab963
  3

• arcasHLA reference error with IMGTHLA>3.34.0

  #129 opened 8 months ago by Tesson98
  0

• unable to install arcasHLA in M3 Mac under conda.

  #131 opened 7 months ago by jasoncrucify
  0

• Getting empty fastq files after partial typing

  #106 opened a year ago by mahlaranjeet
  1

• Problems running `customize`

  #117 opened a year ago by bozbezbozzel
  2

• Giving path to reference dataset in genotype command

  #127 opened 8 months ago by Carovanandel
  0

• hla.p.json error

  #104 opened 2 years ago by JiguuP
  1

• Donor/Recipient

  #124 opened 9 months ago by pwmellors
  0

• arcasHLA reference --update error

  #80 opened 2 years ago by xunzhaoqianlicao
  4

• [IndexError] arcasHLA `reference` -- initial set up

  #116 opened 10 months ago by jinhys
  13

• [KeyError] arcasHLA `convert` - using "group"

  #122 opened 10 months ago by jinhys
  4

• Deprecation of kallisto pseudo

  #109 opened 10 months ago by huzuner
  3

• scipy.stats.mode() function update results in failed reference construction

  #108 opened 10 months ago by huzuner
  2

• 0 reads mapped to a single HLA gene

  #119 opened 10 months ago by tequilasunrise0
  0

• Running paired data results in empty fastq

  #118 opened 10 months ago by blain1995
  1

• empty .fa.gz files when running "extract"

  #110 opened a year ago by Tinocapo
  1

• arcasHLA customize not working

  #111 opened a year ago by staedlern
  1

• Some alles alleles did not be inferred ？

  #115 opened a year ago by Portulaca666
  1

• Frequent reporting of a null allele for 10X data

  #114 opened a year ago by vincentwalter
  0

• quant.py error: FileNotFoundError: [Errno 2] No such file or directory: 'dat/ref/hla.p'

  #101 opened 2 years ago by ahmadalajami
  1

• Interpretation of HLA LOH results

  #82 opened 3 years ago by eseffar
  2

• [reference] Error: dat/IMGTHLA/hla.dat empty or corrupted.

  #113 opened a year ago by Portulaca666
  0

• Bug report for the `run_command` function in `arcas_utilities.py`

  #83 opened 3 years ago by naity2
  1

• intermediate alignment issue

  #105 opened 2 years ago by sulevk
  0

• what's the difference between the genotype and partial parameters ?

  #103 opened 2 years ago by jingydz
  0

• KeyError when running the command arcasHLA convert -r p-group

  #91 opened 2 years ago by HaiHuaLiu
  3

• gene without cDNA sequence causes error when running quant.py

  #102 opened 2 years ago by adeschen
  0

• Command reference --version fails for specific versions

  #97 opened 2 years ago by christopher-mohr
  3

• KeyError "B"

  #95 opened 2 years ago by qz3hub
  1

• Can you pass DNA-seq data to arcasHLA?

  #100 opened 2 years ago by dennis-serum
  0

• Can we add new population?

  #99 opened 2 years ago by yyoshiaki
  1

• Only one extracted file

  #98 opened 2 years ago by yuchenino
  0

• Applying to 10x scRNAseq data

  #96 opened 2 years ago by amitlakhanpal
  0

• hla.p.json

  #92 opened 2 years ago by drkoryjohns
  4

• Differences in arguments between Dockerfile and on GitHub README

  #90 opened 2 years ago by ryanpe13002
  1

• Which genes does arcasHLA support?

  #93 opened 2 years ago by slowkow
  1

• HLA typing for samples with multiple SRRs

  #87 opened 3 years ago by OrielResearchCure
  0

• The result of arcasHLA is not right,why?

  #86 opened 3 years ago by thekingofall
  0

• Is this tool appropriate for DNAseq?

  #85 opened 3 years ago by hfl112
  0

• No output after running `arcasHLA customize`

  #84 opened 3 years ago by naity2
  0

• ./arcasHLA reference --update fires an error

  #76 opened 3 years ago by OrielResearchCure
  4

• Which is default?

  #77 opened 3 years ago by yubau1112
  1