snakemake-workflows / dna-seq-varlociraptorLinks
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.
☆86Updated this week
Alternatives and similar repositories for dna-seq-varlociraptor
Users that are interested in dna-seq-varlociraptor are comparing it to the libraries listed below
Sorting:
- igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"☆127Updated last year
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆140Updated this week
- don't get DUP'ed or DEL'ed by your putative SVs.☆106Updated 4 years ago
- A comprehensive cancer DNA/RNA analysis and reporting pipeline☆73Updated this week
- R package designed to simplify structural variant analysis☆72Updated 3 years ago
- Web application to collect and visualise data across multiple MultiQC runs.☆97Updated 5 months ago
- Per-base per-nucleotide depth analysis☆129Updated 4 months ago
- A C++ drop-in replacement of FastQC to assess the quality of sequence read data☆112Updated 6 months ago
- BigWig and BAM utilities☆96Updated last year
- Plotting tools for nanopore methylation data☆93Updated last year
- Toolkit for calling structural variants using short or long reads☆104Updated this week
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆47Updated this week
- Tip and tricks for BAM files☆85Updated 6 years ago
- Tips for Nextflow and cheatsheet for channel operation☆74Updated 9 months ago
- Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines☆41Updated 3 weeks ago
- JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions☆93Updated this week
- ☆120Updated 6 months ago
- Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:☆86Updated last year
- Grep for FASTQ files☆97Updated last month
- Maximum likelihood demultiplexing☆47Updated 3 months ago
- Software for predicting library complexity and genome coverage in high-throughput sequencing.☆84Updated 7 months ago
- Params validation plugin for Nextflow pipelines☆48Updated 10 months ago
- TIDDIT - structural variant calling☆73Updated last month
- A collection of unexpected challenges and learnings with nextflow and nf-core.☆37Updated last year
- A read extraction and realignment tool for next generation sequencing data☆100Updated 2 years ago
- A set of workflows written in Nextflow for Genome Annotation.☆45Updated 11 months ago
- Experimental features for Nextflow☆43Updated 2 months ago
- Nanopore data analysis in R☆40Updated last year
- LoFreq Star: Sensitive variant calling from sequencing data☆105Updated 2 years ago
- Wally: Visualization of aligned sequencing reads and contigs☆117Updated last month