arq5x / cyvcfLinks
A fast Python library for VCF files leveraging Cython for speed.
☆52Updated 7 years ago
Alternatives and similar repositories for cyvcf
Users that are interested in cyvcf are comparing it to the libraries listed below
Sorting:
- An awk-like VCF parser☆56Updated last year
- conda recipes for genomic data☆85Updated 3 years ago
- create a gemini-compatible database from a VCF☆56Updated 4 years ago
- Tools for next-generation sequencing analysis☆88Updated 6 years ago
- Assembly Based ReAligner☆74Updated 7 years ago
- a wee tool for random access into BGZF files.☆84Updated 7 years ago
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Updated 9 years ago
- High-performance error correction for Illumina resequencing data☆72Updated 9 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Updated 7 years ago
- A tool to benchmark mappers and different parameters within minutes☆44Updated 5 years ago
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆56Updated 7 years ago
- Toil workflows for common genomic pipelines☆33Updated 5 years ago
- Genome-wide reconstruction of complex structural variants☆39Updated 3 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
- Chanjo provides a better way to analyze coverage data in clinical sequencing.☆50Updated 6 months ago
- VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications☆84Updated 8 months ago
- Miscellaneous Bioinformatics scripts etc mostly in Python☆45Updated 3 weeks ago
- De novo assembly based variant calling pipeline for Illumina short reads☆108Updated 4 years ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆53Updated 8 years ago
- Convert genetic variants to minimal representation☆23Updated 7 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
- Browser based application for viewing bam alignments☆56Updated 8 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated 2 years ago
- Scripts, utilities and programs for genomic bioinformatics.☆83Updated last week
- De novo transcriptome assembler for short reads☆62Updated 7 years ago
- Fast fusion detection using kallisto☆80Updated 2 weeks ago
- small RNA analysis from NGS data☆37Updated 9 months ago
- Annotate models of genetic inheritance patterns in variant files (vcf files)☆79Updated 2 months ago
- ☆78Updated 11 years ago
- Retrieve data in genomic intervals with a Python interface for tabix.☆82Updated 7 years ago