chapmanb / bcbio.variationLinks
Toolkit to analyze genomic variation data, built on the GATK with Clojure
☆66Updated 9 years ago
Alternatives and similar repositories for bcbio.variation
Users that are interested in bcbio.variation are comparing it to the libraries listed below
Sorting:
- An awk-like VCF parser☆56Updated last year
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆56Updated 7 years ago
- Run Picard on BAM files and collate 90 metrics into one file.☆41Updated 7 years ago
- Tools for next-generation sequencing analysis☆88Updated 5 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆49Updated 6 years ago
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆66Updated 2 years ago
- Assembly Based ReAligner☆73Updated 7 years ago
- Genomes on the Cloud, Mapping & Variant Calling Pipelines☆34Updated 8 years ago
- Tools for querying and analysis of genomic data☆27Updated 6 months ago
- Annotate models of genetic inheritance patterns in variant files (vcf files)☆79Updated last month
- ☆78Updated 11 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated 2 years ago
- Visualization and annotation of CNVs from population-scale whole-genome sequencing data☆71Updated 7 years ago
- Quality of RNA-Seq Toolset☆53Updated 6 years ago
- Thousand Variant Callers Project Repository☆72Updated 5 years ago
- Fast fusion detection using kallisto☆80Updated 7 months ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆98Updated 2 years ago
- Standalone C library for assembling Illumina short reads in small regions☆72Updated 2 years ago
- VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications☆83Updated 8 months ago
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆56Updated 5 years ago
- R package designed to simplify structural variant analysis☆72Updated 3 years ago
- ☆82Updated 6 years ago
- Platypus Variant Caller☆108Updated 11 months ago
- Tools for early stage alignment file processing☆94Updated 6 years ago
- Relevant papers for CNV and SV approaches☆94Updated 7 months ago
- Scallop is a reference-based transcriptome assembler for RNA-seq☆90Updated 4 years ago
- Ensembl tools☆34Updated last month
- Galaxy RNA workbench☆40Updated 4 years ago
- Flexible genotype query among 30,000+ samples whole-genome☆95Updated 5 years ago
- Scripts, utilities and programs for genomic bioinformatics.☆83Updated 2 weeks ago