Alternatives and similar repositories for sgkit

Users that are interested in sgkit are comparing it to the libraries listed below

• cggh / scikit-allel
  A Python package for exploring and analysing genetic variation data
  ☆304Updated last week
• snakemake / snakefmt
  The uncompromising Snakemake code formatter
  ☆181Updated last month
• gosling-lang / gos
  A declarative interactive genomics visualization library for Python.
  ☆229Updated last week
• open2c / bioframe
  Genomic interval operations on Pandas DataFrames
  ☆183Updated this week
• jdblischak / smk-simple-slurm
  A simple Snakemake profile for Slurm without --cluster-config
  ☆165Updated last year
• snakemake / snakemake-wrappers
  This is the development home of the Snakemake wrapper repository, see
  ☆237Updated this week
• abdenlab / oxbow
  Oxbow makes genomic data ready for high-performance analytics.
  ☆144Updated this week
• tskit-dev / tskit
  Population-scale Ancestral Recombination Graph (ARG) library
  ☆176Updated this week
• pyranges / pyranges
  Performant Pythonic GenomicRanges
  ☆491Updated last month
• g2nb / igv-jupyter
  Extension for Jupyter which integrates igv.js
  ☆154Updated 2 years ago
• Snakemake-Profiles / slurm
  Cookiecutter for snakemake slurm profile
  ☆134Updated last year
• snakemake-workflows / snakemake-workflow-template
  A template for standard compliant snakemake-workflows
  ☆117Updated last month
• open2c / cooler
  A cool place to store your Hi-C
  ☆230Updated this week
• wheretrue / biobear
  Work with bioinformatic files using Arrow, Polars, and/or DuckDB
  ☆191Updated 8 months ago
• vanheeringen-lab / genomepy
  genes and genomes at your fingertips
  ☆404Updated 2 months ago
• brentp / cyvcf2
  cython + htslib == fast VCF and BCF processing
  ☆421Updated last month
• biodatageeks / polars-bio
  Blazing-Fast Bioinformatic Operations on Python DataFrames
  ☆102Updated last month
• lmdu / pyfastx
  a python package for fast random access to sequences from plain and gzipped FASTA/Q files
  ☆290Updated 11 months ago
• bxlab / bx-python
  Tools for manipulating biological data, particularly multiple sequence alignments
  ☆159Updated last week
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆328Updated 8 months ago
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆346Updated 2 weeks ago
• panoptes-organization / panoptes
  Monitor computational workflows in real time
  ☆73Updated last year
• askimed / nf-test
  Simple test framework for Nextflow pipelines
  ☆173Updated last month
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆128Updated 5 years ago
• jeetsukumaran / DendroPy
  A Python library for phylogenetic scripting, simulation, data processing and manipulation.
  ☆225Updated last month
• higlass / higlass
  Fast, flexible and extensible genome browser.
  ☆335Updated last month
• TileDB-Inc / TileDB-VCF
  Efficient variant-call data storage and retrieval library using the TileDB storage library.
  ☆99Updated this week
• GangCaoLab / CoolBox
  Jupyter notebook based genomic data visualization toolkit.
  ☆249Updated this week
• igvteam / igv-notebook
  Module for embedding igv.js in an IPython notebook
  ☆80Updated 10 months ago
• broadinstitute / warp
  Warp Analysis Research Pipelines
  ☆221Updated this week