daler / pybedtoolsLinks
Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
☆328Updated 10 months ago
Alternatives and similar repositories for pybedtools
Users that are interested in pybedtools are comparing it to the libraries listed below
Sorting:
- tools for adding mutations to existing .bam files, used for testing mutation callers☆247Updated last year
- cython + htslib == fast VCF and BCF processing☆427Updated 3 months ago
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆129Updated 5 years ago
- BEDOPS: high-performance genomic feature operations☆359Updated 9 months ago
- GFF and GTF file manipulation and interconversion☆314Updated last week
- Extension for Jupyter which integrates igv.js☆154Updated 3 years ago
- Package for fetching metadata and downloading data from SRA/ENA/GEO☆348Updated last month
- Count bases in BAM/CRAM files☆323Updated 4 years ago
- ☆302Updated last week
- This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.☆245Updated 3 years ago
- HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.☆265Updated 6 months ago
- UCSC command line bioinformatic utilities☆188Updated last year
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆331Updated 8 months ago
- parallel fastq-dump wrapper☆303Updated 2 years ago
- Documentation for the ANNOVAR software☆245Updated 6 months ago
- Performant Pythonic GenomicRanges☆493Updated last week
- Bayesian haplotype-based mutation calling☆323Updated this week
- List of gene lists for genomic analyses.☆225Updated 3 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆262Updated 2 years ago
- C++ API & command-line toolkit for working with BAM data☆429Updated 8 months ago
- Plot structural variant signals from many BAMs and CRAMs☆558Updated last year
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆398Updated this week
- A python extension for quick access to bigWig and bigBed files☆239Updated 3 weeks ago
- SUPPA: Fast quantification of splicing and differential splicing☆293Updated 3 months ago
- GFF and GVF specification documents☆219Updated last year
- Customizable workflows based on snakemake and python for the analysis of NGS data☆397Updated 2 weeks ago
- A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …☆195Updated this week
- VarDict☆201Updated 2 years ago
- Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair☆187Updated last week
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆409Updated 6 months ago