Scholl Lab

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10 repositories

variantcentrifuge
Public
A pipeline for filtering annotated variant call format files
genetics vcf bcftools snpeff rare-variant-analysis rare-disease kidney-disease snpsift
Python
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MIT License
•0•0•9•0•Updated Dec 19, 2024Dec 19, 2024
vcf-filtering
Public
A collection of scripts for filtering annotated variant call format files
genetics vcf bcftools snpeff rare-variant-analysis rare-disease kidney-disease snpsift
Shell
•
MIT License
•1•4•34•0•Updated Dec 17, 2024Dec 17, 2024
sm-vcf-annotation
Public
Snakemake scripts to annotate VCF files using SnpEff and SnpSift
Python
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MIT License
•0•0•4•0•Updated Dec 12, 2024Dec 12, 2024
merge-multisample-vcf
Public
Python
•0•1•3•0•Updated Dec 1, 2024Dec 1, 2024
apa-sequencing
Public
Code for the aldosterone-producing adenoma sequencing project
Python
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MIT License
•0•0•12•0•Updated Sep 5, 2024Sep 5, 2024
plasmicheck
Public
Detect and quantify plasmid DNA contamination in sequencing data
bioinformatics genomics next-generation-sequencing plasmid contamination-detection minimap2 splicing
Python
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MIT License
•0•0•32•0•Updated Aug 21, 2024Aug 21, 2024
sm-calling
Public
Python
•
MIT License
•0•0•9•0•Updated Jul 18, 2024Jul 18, 2024
sm-alignment
Public
Python
•
MIT License
•0•0•16•0•Updated May 30, 2024May 30, 2024
command-chest
Public
A collection of assorted tools, command lines and scripts
Python
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MIT License
•0•0•2•0•Updated Dec 7, 2023Dec 7, 2023
gckd_multisample_vcf
Public
Commands to merge and annotate GCKD single sample VCFs
Shell
•
MIT License
•0•0•3•0•Updated Oct 30, 2023Oct 30, 2023