jamescasbon / PyVCFLinks
A Variant Call Format reader for Python.
☆418Updated 2 years ago
Alternatives and similar repositories for PyVCF
Users that are interested in PyVCF are comparing it to the libraries listed below
Sorting:
- Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")☆327Updated 8 months ago
- cython + htslib == fast VCF and BCF processing☆421Updated 2 months ago
- C++ API & command-line toolkit for working with BAM data☆429Updated 6 months ago
- Count bases in BAM/CRAM files☆321Updated 3 years ago
- A flexible framework for rapid genome analysis and interpretation☆316Updated 3 years ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆329Updated 6 months ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆391Updated 3 months ago
- Reads simulator☆283Updated 4 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆334Updated 3 years ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆247Updated last year
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆495Updated last month
- Plot structural variant signals from many BAMs and CRAMs☆557Updated last year
- GFF and GVF specification documents☆216Updated last year
- ☆296Updated this week
- This Snakemake pipeline implements the GATK best-practices workflow☆261Updated 2 years ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆212Updated 5 years ago
- BEDOPS: high-performance genomic feature operations☆354Updated 7 months ago
- A tool set for short variant discovery in genetic sequence data.☆203Updated 4 years ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆404Updated 4 months ago
- a lightweight db framework for exploring genetic variation.☆323Updated 5 years ago
- A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline☆204Updated 2 years ago
- Python library to parse, format, validate, normalize, and map sequence variants according to HGVS Nomenclature (https://hgvs-nomenclature…☆286Updated last month
- A genome browser designed for complex structural variants and long reads.☆294Updated 6 months ago
- VarDict☆201Updated last year
- Annotation and Ranking of Structural Variation☆275Updated 2 months ago
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆395Updated last month
- Haplotype VCF comparison tools☆453Updated 2 years ago
- Documentation for the ANNOVAR software☆244Updated 4 months ago
- Efficient pythonic random access to fasta subsequences☆478Updated 3 months ago
- Short read de novo assembler using de Bruijn graphs, as published in: D.R. Zerbino and E. Birney. 2008. Velvet: algorithms for de novo sh…☆292Updated 2 months ago