Snakemake workflow used to call germline and/or somatic variants with GATK Mutect2
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Updated
Jul 14, 2024 - Python
Snakemake workflow used to call germline and/or somatic variants with GATK Mutect2
Align reads over a reference genome, filter aligned-reads, and mark duplicates
Download and index Ensembl sequences and annotations
Config files for my GitHub profile.
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.
Snakemake workflow designed to perform RNASeq transcrpotime expression estimation with Salmon
A Snakemake workflow to run and benchmark structure learning (a.k.a. causal discovery) algorithms for probabilistic graphical models.
Snakemake-based computational workflow for neoantigen prediction from diverse sources
🦄 This repository contains all the best practices about GitHub
Pipeline for consensus prediction of cell types in single-cell RNA sequencing data.
Snakemake file for handling concatenated Illumina .fastq.gz files to generate aligned sequence
Snakemake workflow for DamID-Seq analysis
SARS2seq is a pipeline designed to process raw FastQ data from targeted SARS-CoV-2 sequencing and generate biologically correct consensus sequences of the SARS-CoV-2 genome.
ViroConstrictor is a pipeline designed to process raw FastQ data from viral amplicon-based sequencing and generate biologically correct consensus sequences of the given viral genome
Snakemake workflow for CRISPR-Cas9 screen analysis
Variant Calling Snakemake Pipeline
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
A state-of-the-art snakemake workflow for amplicon sequencing
HBVouroboros automates sequencing-based HBV genotyping and expression profiling
A repository for efficient population genomic analysis using Snakemake workflow.
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