Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
☆330Mar 16, 2025Updated last year
Alternatives and similar repositories for pybedtools
Users that are interested in pybedtools are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl☆405Jul 8, 2026Updated last month
- Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight…☆904Updated this week
- GFF and GTF file manipulation and interconversion☆319Mar 31, 2026Updated 4 months ago
- bedtools - the swiss army knife for genome arithmetic☆1,045Jun 10, 2026Updated 2 months ago
- cython + htslib == fast VCF and BCF processing☆446Jun 25, 2026Updated last month
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Performant Pythonic GenomicRanges☆493Apr 23, 2026Updated 3 months ago
- Efficient pythonic random access to fasta subsequences☆489Mar 19, 2026Updated 4 months ago
- python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.☆15Feb 13, 2018Updated 8 years ago
- Tools to process and analyze deep sequencing data.☆762Updated this week
- A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …☆196Aug 1, 2026Updated last week
- BEDOPS: high-performance genomic feature operations☆375Apr 29, 2025Updated last year
- python module to plot beautiful and highly customizable genome browser tracks☆894Jul 10, 2024Updated 2 years ago
- A python extension for quick access to bigWig and bigBed files☆249Jul 22, 2026Updated 2 weeks ago
- Parsing tools for GTF (gene transfer format) files☆128Jul 8, 2026Updated last month
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Python library to handle Gene Ontology (GO) terms☆904Updated this week
- MACS -- Model-based Analysis of ChIP-Seq☆782Jul 7, 2026Updated last month
- python access to UCSC genomes database☆138Aug 27, 2020Updated 5 years ago
- miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.☆181Nov 26, 2018Updated 7 years ago
- Incubator for useful bioinformatics code, primarily in Python and R☆645Feb 5, 2025Updated last year
- a python package for fast random access to sequences from plain and gzipped FASTA/Q files☆296Jun 10, 2026Updated 2 months ago
- Pure-python implementation of UCSC liftOver genome coordinate conversion☆104Feb 8, 2024Updated 2 years ago
- Scripts, utilities and programs for genomic bioinformatics.☆83Jun 19, 2026Updated last month
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,484Aug 2, 2026Updated last week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Genomic interval operations on Pandas DataFrames☆194Aug 3, 2026Updated last week
- A collection of perl scripts for NGS analysis☆17Oct 2, 2024Updated last year
- Count bases in BAM/CRAM files☆326Jul 10, 2026Updated last month
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆869May 2, 2026Updated 3 months ago
- A cool place to store your Hi-C☆242Aug 3, 2026Updated last week
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆51Apr 9, 2021Updated 5 years ago
- A Variant Call Format reader for Python.☆419Sep 22, 2023Updated 2 years ago
- C++ API & command-line toolkit for working with BAM data☆431May 18, 2025Updated last year
- Cutadapt removes adapter sequences from sequencing reads☆586Jul 27, 2026Updated 2 weeks ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- A powerful toolset for genome arithmetic.☆143May 28, 2021Updated 5 years ago
- BWK awk modified for biological data☆643Aug 11, 2022Updated 4 years ago
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆130Apr 12, 2020Updated 6 years ago
- Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data☆86Aug 25, 2020Updated 5 years ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆475Updated this week
- A Python interface to the BEDTools API using Cython☆28Mar 16, 2011Updated 15 years ago
- ChIP-seq peak calling with GC effects adjustment☆10Jul 5, 2018Updated 8 years ago