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Pull requests: nf-core/sarek

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Pull requests list

Finally merge in Sarek bcftools normalization (#1682)
#1770 opened Jan 13, 2025 by maxulysse Loading…
5 of 22 tasks
2
POC: references usage in CI
#1769 opened Jan 10, 2025 by maxulysse Loading…
11 tasks
2
Important! Template update for nf-core/tools v3.1.1
#1764 opened Dec 20, 2024 by nf-core-bot Loading…
feat: Add linting of FASTQ with FQ/LINT
#1763 opened Dec 17, 2024 by adamrtalbot Loading…
11 tasks
5
ci: Skip nf-test on docs changes
#1761 opened Dec 12, 2024 by edmundmiller Loading…
@edmundmiller
6
feat: add MuSE as new somatic variant caller
#1744 opened Dec 4, 2024 by famosab • Draft
8 of 11 tasks
1
12
Implemented TMB score calculation
#1738 opened Nov 20, 2024 by bounlu Loading…
1 of 11 tasks
6
Implemented MSISENSORPRO tumor-only analysis
#1737 opened Nov 20, 2024 by bounlu Loading…
1 of 11 tasks
13
Use original QC values for Deepvariant after BQSR
#1733 opened Nov 15, 2024 by FriederikeHanssen • Draft
11 tasks
3
ci: Remove pytest-workflow
#1729 opened Nov 8, 2024 by edmundmiller • Draft
@edmundmiller
1
WIP Internal Benchmarking
#1721 opened Nov 1, 2024 by famosab • Draft
11 tasks
6
Support for PureCN
#1710 opened Oct 29, 2024 by lbeltrame • Draft
3 of 14 tasks
@lbeltrame
4
Add full test report
#1701 opened Oct 28, 2024 by edmundmiller • Draft
11 tasks
1
@maxulysse @edmundmiller
2
FEAT: Auto CHANGELOG GHA
#1688 opened Oct 14, 2024 by maxulysse • Draft
2
Try to simplify params.tools usage
#1667 opened Sep 30, 2024 by maxulysse Loading…
11 tasks
1
[DRAFT] Add telseq "a software that estimates telomere length "
#1665 opened Sep 26, 2024 by lindenb Loading…
6 of 11 tasks
Add deepsomatic tool
#1647 opened Sep 10, 2024 by vaxyzek • Draft
11 tasks
7
Asmultipcf implementation for multi-sample ASCAT CNV calling
#1646 opened Sep 4, 2024 by alexanderchang1 Loading…
8 tasks done
2
add_dysgu_sarek
#1590 opened Jul 11, 2024 by poddarharsh15 Loading…
11 tasks
14
vardictjava variant calling workflow
#1582 opened Jul 3, 2024 by eolaniru Loading…
11 tasks
13
Split variantannotation in its own pipeline and import it
#1561 opened Jun 11, 2024 by maxulysse Loading…
11 tasks
7
WIP: Add sentieon tnseq sentieon
#1497 opened May 3, 2024 by SPPearce • Draft
1
Added Minimap2 alignment
#1486 opened Apr 25, 2024 by EgorGuga Loading…
8 of 10 tasks
11
Add module bcftools/norm to sarek (in progress)
#1483 opened Apr 25, 2024 by JC-Delmas Loading…
1 of 11 tasks
16
Sambamba
#1368 opened Dec 29, 2023 by stavgrossfeld • Draft
10 tasks
2
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