FRED-2 OptiType issues - Githubissues

FRED-2 / OptiType

Precision HLA typing from next-generation sequencing data

BSD 3-Clause "New" or "Revised" License

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issues

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Bam file to prefilter reads

#147 SirKuikka closed 1 month ago
1
config to run Optitype script

#146 jkxm closed 4 months ago
0
core dumped bad_alloc in seqan

#145 vodkatad closed 1 month ago
6
Issue with downloading OptiType docker image

#144 mwu2001 closed 5 months ago
1
Razers3 being slow

#143 SirKuikka closed 8 months ago
1
unpaired reads, no mismatches, ambiguous

#142 QianRongAn closed 1 month ago
1
HLA typing 10x scRNA-seq data with Optitype

#141 Githubuser3838 opened 9 months ago
0
this team is no longer maintained

#140 SunYong0821 opened 9 months ago
1
Installation problem with pyomo module

#139 Elisa89m closed 1 month ago
1
Want to use Optitype HLA results as input file for pVACseq, if someone could provide suggestion?

#138 edceeyuchen closed 5 months ago
2
Maximal read length of 0 bps exceeded

#137 frankligy opened 1 year ago
0
ValueError: too many values to unpack

#136 szabolcstarapcsak opened 1 year ago
0
Is it based on hg38 genome?

#135 xiasijian closed 1 month ago
3
Does OptiType only predict alleles in "freq_alleles"

#134 mourisl closed 1 month ago
1
Hi dear @andras86 , What's the meanning for "introns from " as picture beblow? I found it apprearing in https://github.com/FRED-2/OptiType/blob/master/hlatyper.py

#133 whiffen-cann closed 1 month ago
1
error using docker

#132 anoronh4 opened 1 year ago
0
output file column description

#131 cjieming2 opened 2 years ago
0
could not open alignment file

#130 tamlav closed 5 months ago
4
OptiType returns ValueError with some samples while running just fine with others

#129 isinaltinkaya opened 2 years ago
0
The SolverFactory was unable to create the solver "glpk"

#128 iskysinger closed 1 month ago
1
what about MICA MICB typing

#127 dingying85 opened 2 years ago
1
Optitype fails to run silently and does not generate the resulting TSV file

#126 b-niu opened 2 years ago
0
Optitype memory error in v1.3.5 due to pandas' reindex

#125 jnktsj opened 2 years ago
3
conda installation issue

#124 OrielResearchCure opened 2 years ago
1
conda installation issue

#123 OrielResearchCure opened 2 years ago
0
RAM fully occupied with very small input fastq

#122 zyh4482 closed 3 years ago
0
Updated Docker version

#121 YingYa opened 3 years ago
0
OptiType killed OOM

#120 Akazhiel opened 3 years ago
4
How to deal with tumor-only samples?

#119 qindan2008 opened 3 years ago
0
h:363 FAILED! (Uncaught exception of type seqan::UnexpectedEnd: Unexpected end of input.)

#118 jingydz closed 3 years ago
5
Fix potential output name collisions

#117 lkuchenb closed 3 years ago
0
IOError: [Errno 2] could not open alignment file

#116 dstueckm opened 3 years ago
6
AttributeError: 'Index' object has no attribute 'difference'

#115 renyuan01 opened 3 years ago
2
Commands for Singularity Bootstrap of Docker Image

#114 ilovesquishy opened 3 years ago
1
Read counts for each HLA allele

#113 dpwickland closed 3 years ago
0
Ways to update hla reference/allele data?

#112 ikarus97 opened 3 years ago
6
Error with solver

#111 warrenlr closed 3 years ago
1
IOError: [Errno 2] could not open alignment file `result/2020_07_08_14_33_58/2020_07_08_14_33_58_1.bam`: No such file or directory

#110 frankligy opened 4 years ago
6
"ValueError: Length mismatch"

#109 GBeattie opened 4 years ago
0
Updated dockerfile

#108 alexiswl opened 4 years ago
0
HLA class II prediction

#107 PKazakova opened 4 years ago
5
add shebang

#106 naumenko-sa closed 4 years ago
0
travis.yml for newest Ubuntu LTS, future-proof confiparser

#105 andras86 closed 4 years ago
0
Pysam issue

#104 andras86 closed 4 years ago
0
fix python2/python3 configparser issue. close #101

#103 naumenko-sa closed 4 years ago
0
OptiType crash due to pandas deprecation

#102 Stikus closed 4 years ago
1
Optitype crashes with python2.7.17 due to configparser

#101 naumenko-sa closed 4 years ago
2
OptiType crashes after loading reads

#100 TimFugmann closed 4 years ago
4
update to python3 in OptiType container

#99 biolxy opened 4 years ago
0
Downloading MNIST dataset

#98 prachikashikar closed 4 years ago
0