nf-core1d ago

Pipeline release! nf-core/sarek v3.8.1 - 3.8.1 - Laitaure!
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.8.1

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Release 3.8.1 - Laitaure · nf-core/sarek

What's Changed Fix bcftools concat on Strelka somatic VCFs by @FriederikeHanssen in #2128 Full Changelog: 3.8.0...3.8.1

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nf-core3d ago

Pipeline release! nf-core/rnavar v1.2.3 - nf-core/rnavar 1.2.3 - Yellow Hammer Head!
gatk4 RNA variant calling pipeline
Please see the changelog: https://github.com/nf-core/rnavar/releases/tag/1.2.3

#gatk4 #rna #rnaseq #variantcalling #worflow #nfcore #openscience #nextflow #bioinformatics

Release nf-core/rnavar 1.2.3 - Yellow Hammer Head · nf-core/rnavar

Minor code refactoring Topic versions everywhere Nextflow strict syntax everywhere workflow output conversion started What's Changed back to dev by @maxulysse in #266 Update all modules by @maxul...

GitHub
nf-core3d ago

Pipeline release! nf-core/sarek v3.8.0 - 3.8.0 - Sitojaure!
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.8.0

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

nf-coreDec 11

Pipeline release! nf-core/sarek v3.7.1 - 3.7.1 - Buollámtjåhkka!
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.7.1

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Release 3.7.1 - Buollámtjåhkka · nf-core/sarek

What's Changed Fix Haplotypecaller failure on 3.7.0 in #2069 Update modules: MultiQC (1.31 -> 1.33; adds BBsplit reporting) and BBSplit (bug on shared file systems)in #2073 Validate umi_read_struc...

GitHub
nf-coreDec 5

Pipeline release! nf-core/rnavar v1.2.2 - nf-core/rnavar 1.2.2 - Gray Red Tail!
gatk4 RNA variant calling pipeline
Please see the changelog: https://github.com/nf-core/rnavar/releases/tag/1.2.2

#gatk4 #rna #rnaseq #variantcalling #worflow #nfcore #openscience #nextflow #bioinformatics

Release nf-core/rnavar 1.2.2 - Gray Red Tail · nf-core/rnavar

What's Changed use nf-core-utils by @maxulysse in #233 Important! Template update for nf-core/tools v3.4.0 by @nf-core-bot in #242 Important! Template update for nf-core/tools v3.4.1 by @nf-core-b...

GitHub
nf-coreDec 4

Pipeline release! nf-core/sarek v3.7.0 - 3.7.0 - Saltoluokta!
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.7.0

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Release 3.7.0 - Saltoluokta · nf-core/sarek

What's Changed New Tools #2044 - Added VCF filtering with bcftools after variant calling #2049 - Added consensus calling for small variants called by multiple tools (default: 2+ tools) New Parame...

GitHub
nf-coreDec 3

Pipeline release! nf-core/variantbenchmarking v1.4.0 - Thin Yasar!
Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
Please see the changelog: https://github.com/nf-core/variantbenchmarking/releases/tag/1.4.0

#benchmark #smallvariants #structuralvariants #variantcalling #nfcore #openscience #nextflow #bioinformatics

nf-coreOct 24

Pipeline release! nf-core/sarek v3.6.1 - Sarek 3.6.1 - Sjnjierák!

Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.6.1

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Release Sarek 3.6.1 - Sjnjierák · nf-core/sarek

What's Changed This release contains a fix for --aligner parabricks to use the correct intervals channel when running with --wes or --intervals <file> see #2029. This patch release includes a bump ...

GitHub
nf-coreOct 14

Pipeline release! nf-core/sarek v3.6.0 - Sarek 3.6.0 - Kvikkjokk!

Please see the changelog: https://github.com/nf-core/sarek/releases/tag/3.6.0

#annotation #cancer #gatk4 #genomics #germline #preprocessing #somatic #targetpanels #variantcalling #wholeexomesequencing #wholegenomesequencing #nfcore #openscience #nextflow #bioinformatics

Release Sarek 3.6.0 - Kvikkjokk · nf-core/sarek

What's Changed Main new features 🧬 Lots of improvements around UMI support (#1937, @SPPearce) ⏩ Parabricks support (#1804, @famosab) 🔍 Muse (#1744, @famosab) and Sentieon TNScope (#1934, @SPPearc...

GitHub
nf-coreSep 23

Pipeline release! nf-core/rnavar v1.2.1 - nf-core/rnavar 1.2.1 - Red Swordfish II!

Please see the changelog: https://github.com/nf-core/rnavar/releases/tag/1.2.1

#gatk4 #rna #rnaseq #variantcalling #worflow #nfcore #openscience #nextflow #bioinformatics

Release nf-core/rnavar 1.2.1 - Red Swordfish II · nf-core/rnavar

What's Changed Back to dev by @maxulysse in #231 update all modules by @maxulysse in #232 bump vep by @matthdsm in #235 update ensemblvep to 115.1 by @maxulysse in #237 Fix issues with dbsnp and k...

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