RabadanLab arcasHLA issues

RabadanLab / arcasHLA

Fast and accurate in silico inference of HLA genotypes from RNA-seq

GNU General Public License v3.0

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issues

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Unexpected Explained Reads Calculation

#139 ddemelfi opened 4 days ago
0
new version of kallisto outputs have changed

#138 katahdin0 opened 2 months ago
0
samtools and kallisto versions not found

#137 arusa opened 3 months ago
2
Update Dockerfile ENV PATH line

#136 EdGreen21 opened 3 months ago
0
Failure to check exit codes of run_command causes a hang

#135 pshaughn opened 3 months ago
0
pseudoalignments.tsv error

#134 Bondada20 opened 5 months ago
3
IMGT/HLA version 3.56.0 and onwards provides large files as zip files

#133 Carovanandel opened 7 months ago
2
Update parameters.json with recent IMGT/HLA reference versions

#132 Carovanandel opened 7 months ago
0
unable to install arcasHLA in M3 Mac under conda.

#131 jasoncrucify opened 7 months ago
0
No HLA name file

#130 arghdan opened 7 months ago
1
arcasHLA reference error with IMGTHLA>3.34.0

#129 Tesson98 opened 7 months ago
0
Add DRB4 to parameters.json

#128 BenSolomon opened 8 months ago
0
Giving path to reference dataset in genotype command

#127 Carovanandel opened 8 months ago
0
TypeError: only integer scalar arrays can be converted to a scalar index

#126 Weiyifan opened 8 months ago
1
Update Dockerfile

#125 VergaJU opened 8 months ago
0
Donor/Recipient

#124 pwmellors opened 8 months ago
0
Update dependencies for bioconda integration

#123 abuendia closed 9 months ago
0
[KeyError] arcasHLA `convert` - using "group"

#122 jinhys closed 9 months ago
4
Dockerfile and CI/CD to use conda environment

#121 abuendia closed 9 months ago
0
Conda environment and dependency patch

#120 abuendia closed 9 months ago
0
0 reads mapped to a single HLA gene

#119 tequilasunrise0 opened 9 months ago
0
Running paired data results in empty fastq

#118 blain1995 closed 10 months ago
1
Problems running `customize`

#117 bozbezbozzel opened 10 months ago
2
[IndexError] arcasHLA `reference` -- initial set up

#116 jinhys closed 9 months ago
13
Some alles alleles did not be inferred ？

#115 Portulaca666 opened 11 months ago
1
Frequent reporting of a null allele for 10X data

#114 vincentwalter opened 12 months ago
0
[reference] Error: dat/IMGTHLA/hla.dat empty or corrupted.

#113 Portulaca666 closed 1 year ago
0
Update README.md

#112 ShihanL closed 9 months ago
1
arcasHLA customize not working

#111 staedlern opened 1 year ago
1
empty .fa.gz files when running "extract"

#110 Tinocapo closed 1 year ago
1
Deprecation of kallisto pseudo

#109 huzuner closed 9 months ago
3
scipy.stats.mode() function update results in failed reference construction

#108 huzuner closed 9 months ago
2
Bump scipy from 1.1.0 to 1.10.0

#107 dependabot[bot] closed 9 months ago
0
Getting empty fastq files after partial typing

#106 mahlaranjeet opened 1 year ago
1
intermediate alignment issue

#105 sulevk opened 1 year ago
0
hla.p.json error

#104 JiguuP opened 1 year ago
1
what's the difference between the genotype and partial parameters ?

#103 jingydz opened 1 year ago
0
gene without cDNA sequence causes error when running quant.py

#102 adeschen opened 1 year ago
0
quant.py error: FileNotFoundError: [Errno 2] No such file or directory: 'dat/ref/hla.p'

#101 ahmadalajami opened 1 year ago
1
Can you pass DNA-seq data to arcasHLA?

#100 dennis-serum opened 1 year ago
0
Can we add new population?

#99 yyoshiaki opened 1 year ago
1
Only one extracted file

#98 yuchenino opened 1 year ago
0
Command reference --version fails for specific versions

#97 christopher-mohr opened 1 year ago
3
Applying to 10x scRNAseq data

#96 amitlakhanpal opened 1 year ago
0
KeyError "B"

#95 qz3hub opened 2 years ago
1
fix key error

#94 alienzj closed 9 months ago
0
Which genes does arcasHLA support?

#93 slowkow closed 2 years ago
1
hla.p.json

#92 drkoryjohns closed 2 years ago
4
KeyError when running the command arcasHLA convert -r p-group

#91 HaiHuaLiu closed 1 year ago
3
Differences in arguments between Dockerfile and on GitHub README

#90 ryanpe13002 closed 2 years ago
1