Alternatives and similar repositories for pyfaidx:

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

• pyranges / pyranges
  Performant Pythonic GenomicRanges
  ☆461Updated last week
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆797Updated 8 months ago
• vanheeringen-lab / genomepy
  genes and genomes at your fingertips
  ☆386Updated last month
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆400Updated 2 months ago
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆316Updated last week
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆597Updated 10 months ago
• deeptools / deepTools
  Tools to process and analyze deep sequencing data.
  ☆705Updated this week
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆540Updated 8 months ago
• ebi-pf-team / interproscan
  Genome-scale protein function classification
  ☆316Updated last week
• lmdu / pyfastx
  a python package for fast random access to sequences from plain and gzipped FASTA/Q files
  ☆277Updated 2 months ago
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆557Updated 3 months ago
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆421Updated this week
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆394Updated this week
• brentp / cyvcf2
  cython + htslib == fast VCF and BCF processing
  ☆392Updated 6 months ago
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆496Updated 4 months ago
• CGATOxford / UMI-tools
  Tools for handling Unique Molecular Identifiers in NGS data sets
  ☆505Updated last month
• bioconvert / bioconvert
  Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
  ☆377Updated last year
• pezmaster31 / bamtools
  C++ API & command-line toolkit for working with BAM data
  ☆423Updated 8 months ago
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆414Updated 2 months ago
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆325Updated last month
• libnano / primer3-py
  Simple oligo analysis and primer design
  ☆175Updated 3 weeks ago
• openvax / pyensembl
  Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl
  ☆391Updated 9 months ago
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆587Updated 7 months ago
• pachterlab / ffq
  A tool to find sequencing data and metadata from public databases.
  ☆568Updated 7 months ago
• NBISweden / AGAT
  Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
  ☆494Updated last week
• pcingola / SnpEff
  ☆265Updated last month
• lindenb / jvarkit
  Java utilities for Bioinformatics
  ☆496Updated this week
• rcedgar / muscle
  Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, e…
  ☆238Updated 3 months ago
• bwa-mem2 / bwa-mem2
  The next version of bwa-mem
  ☆742Updated 7 months ago
• veg / hyphy
  HyPhy: Hypothesis testing using Phylogenies
  ☆230Updated this week