Skip to content

Issues: mskcc/vcf2maf

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Clear current search query, filters, and sorts
90 Open 232 Closed
90 Open 232 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Problem with running maf2vcf using GRch38 as reference fasta
#187 opened Aug 7, 2018 by Frank-LSY
3
Getting 'uninitialized value' error
#135 opened Aug 25, 2017 by ckandoth
@ckandoth
2
FILTER tags of same variant from different samples are being merged bug
#142 opened Sep 28, 2017 by ckandoth
@ckandoth
Add support for the VEP plugins LoF and LoFtool enhancement
#145 opened Oct 30, 2017 by alexpenson
@ckandoth
Handle new start_retained_variant seen in a VEP v91 run
#158 opened Mar 1, 2018 by ckandoth
@ckandoth
1
Obtain variant allele fraction from VCF
#171 opened May 31, 2018 by bioinfo-dirty-jobs
@ckandoth
4
WT1 missing from isoform_overrides_uniprot_from_biomart_91 and isoform_overrides_uniprot
#173 opened Jun 12, 2018 by rhshah
@inodb
4
Does vcf2maf work for Mac OS?
#176 opened Jun 21, 2018 by lemuelsoh
1
vcf2maff resuts on varsccan
#178 opened Jul 5, 2018 by bioinfo-dirty-jobs
Run vcf2maf for bcftools merged vcf
#180 opened Jul 17, 2018 by DadongZ
WARNING: 51499 : Use of uninitialized value in subtraction (-)
#182 opened Jul 18, 2018 by DadongZ
1
retain info from FORMAT field vcf2maf
#184 opened Jul 19, 2018 by anabbi
2
Enable AF reporting for both gnomad/exac VCFs, whether GRCh37/GRCh38
#92 opened Oct 25, 2016 by ckandoth
@andurill
3
Problem in annotating mice vcf
#186 opened Aug 6, 2018 by banerjeeshayantan
maf2vcf :how was the result of FILTER in the vcf files computed?
#192 opened Sep 12, 2018 by paradoxechen
Failed to run vcf2maf for a vcf file cleaned with vcf2vcf
#194 opened Sep 22, 2018 by wisekh6
@ckandoth
1
Add support for LoFreq VCFs
#196 opened Oct 4, 2018 by ckandoth
@ckandoth
--ref-fasta is missing or empty
#200 opened Oct 25, 2018 by cegg
@ckandoth
14
vcf2vcf genotyping using bam input
#202 opened Nov 6, 2018 by fpbarthel
@ckandoth
1
ERROR: Failed to run the VEP annotator!
#204 opened Dec 14, 2018 by neilihrke
@ckandoth
8
New VEP does not handle Delly SV VCFs
#208 opened Dec 26, 2018 by ckandoth
@ckandoth
maf2vcf.pl: multiple FILTER tags should be semicolon separated
#209 opened Dec 30, 2018 by soccin
@ckandoth
2
Infer Frame from breakend format for SVs
#217 opened Mar 16, 2019 by ckandoth
@ckandoth
SOMATIC INFO field on VCF
#218 opened Mar 18, 2019 by caaespin
Docker build fails due to hardcoded Clear Linux version
#367 opened Feb 11, 2025 by maciejmotyka
1
ProTip! no:milestone will show everything without a milestone.