Skip to content

Issues: nf-core/sarek

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

210 Open 400 Closed
210 Open 400 Closed
Author
Filter by author
Label
Filter by label
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Milestones
Filter by milestone
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

Staging foreign file not found for GRCh37 bug Something isn't working
#1515 opened May 8, 2024 by ekushele
5
Giving a user fasta file, but keeping all default fil path bug Something isn't working
#1514 opened May 7, 2024 by Ist4lri
1
Copy-Number Enhancements - Ascat joint calling enhancement New feature or request
#1512 opened May 7, 2024 by maxulysse 3.5
primer trimming enhancement New feature or request
#1511 opened May 7, 2024 by aihualin
1
Copy-Number Enhancements - Ascat penality enhancement New feature or request
#1510 opened May 7, 2024 by seedgeorge 3.5
1
same sample name over multiple patient doest not fail input schema validation bug Something isn't working
#1503 opened May 6, 2024 by maxulysse
1
Region 536904516..536917009 cannot be stored in a tbi index bug Something isn't working
#1500 opened May 5, 2024 by fan040
Error creating symlinks to BWAIndex bug Something isn't working
#1492 opened Apr 30, 2024 by nevinwu
GCP error in v.3.4.1 "Cloud Storage objects are immutable" bug Something isn't working
#1491 opened Apr 29, 2024 by lescai
1
Error handle for sentieon-dedup with non-sentieon aligner bug Something isn't working
#1480 opened Apr 23, 2024 by asp8200
@asp8200
1
mutect2 error with tumor-normal pairs starting from BAM files bug Something isn't working
#1468 opened Apr 17, 2024 by sci-kai
1
Unable to run sarek workflow in AWS health omics bug Something isn't working
#1458 opened Apr 8, 2024 by DimitrisZisis
12
Additional documentation for specifying ext.args for Mutect2 to avoid join mismatch error enhancement New feature or request
#1455 opened Apr 3, 2024 by pulintz-um
vep_cache versions should probably not be integers bug Something isn't working
#1454 opened Apr 2, 2024 by leipzig
@maxulysse
ERROR ~ Error executing process bug Something isn't working
#1453 opened Apr 2, 2024 by javierAPC
2
bwa index can not build bug Something isn't working
#1452 opened Apr 1, 2024 by xiangqing111
Some issues caused an error in the variant_calling step: There are multiple input files for each of the following file names bug Something isn't working
#1451 opened Mar 29, 2024 by hsk6328
add nf-boost enhancement New feature or request
#1450 opened Mar 28, 2024 by maxulysse
2
Sarek possibly supplying the wrong number of args for CONTROLFREEC_ASSESSSIGNIFICANCE? bug Something isn't working
#1449 opened Mar 23, 2024 by SpikyClip
ERROR Timeout waiting for connection from pool bug Something isn't working
#1447 opened Mar 21, 2024 by zisis86
meta-sarek: One pipeline to rule them all enhancement New feature or request
#1446 opened Mar 21, 2024 by matthdsm
DragMap fails if --trim_fastq flag is enabled bug Something isn't working
#1445 opened Mar 20, 2024 by Ilaria-Pirona
4
No reads for mitochondrial chromosome and additional contigs after recalibration bug Something isn't working
#1443 opened Mar 20, 2024 by edg1983
4
TIDDIT_SV produces *.tiddit.ploidies.tab but not *.tiddit.vcf, timing out and failing to complete bug Something isn't working
#1441 opened Mar 19, 2024 by SpikyClip
5
Add DeepSomatic to the Sarek Pipeline
#1440 opened Mar 18, 2024 by danielecook
1
ProTip! Updated in the last three days: updated:>2024-05-06.