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The Top 23 Fasta Fastq Open Source Projects

Open source projects categorized as Fasta Fastq
Categories > Fasta
Categories > Fastq
Oneliners ⭐ 1,705
Useful bash one-liners for bioinformatics.
most recent commit 9 months ago
Seqtk ⭐ 1,148
Toolkit for processing sequences in FASTA/Q formats
total releases 1most recent commit a year ago
Seqkit ⭐ 1,133
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
total releases 122most recent commit 3 months ago
Vsearch ⭐ 605
Versatile open-source tool for microbiome analysis
total releases 1most recent commit 3 months ago
Seqan3 ⭐ 373
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
most recent commit 3 months ago
Bioinformatics One Liners ⭐ 277
Bioinformatics one liners from Ming Tang
most recent commit 4 years ago
Krakentools ⭐ 242
KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
most recent commit 5 months ago
Pyfastx ⭐ 211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
dependent packages 20total releases 68most recent commit 5 months agopypi pyfastx} Downloads
Rasusa ⭐ 156
Randomly subsample sequencing reads to a specified coverage
total releases 11most recent commit 4 months ago
Genomics ⭐ 154
A collection of scripts and notes related to genomics and bioinformatics
most recent commit 2 years ago
Genozip ⭐ 144
A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too
total releases 132most recent commit 3 months ago
Fastx_toolkit ⭐ 109
FASTA/FASTQ pre-processing programs
most recent commit 5 years ago
Readfq ⭐ 105
Fast multi-line FASTA/Q reader in several programming languages
most recent commit 5 years ago
Isoquant ⭐ 98
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
most recent commit 4 months ago
Seqfu2 ⭐ 96
🚀 seqfu - Sequece Fastx Utilities
most recent commit 4 months ago
Assembly Stats ⭐ 92
Get assembly statistics from FASTA and FASTQ files
most recent commit a year ago
Cljam ⭐ 87
A DNA Sequence Alignment/Map (SAM) library for Clojure
total releases 37most recent commit 3 months ago
Mcclintock ⭐ 83
Meta-pipeline to identify transposable element insertions using next generation sequencing data
most recent commit 3 months ago
Idba ⭐ 80
most recent commit 6 years ago
Phylosift ⭐ 68
Phylogenetic and taxonomic analysis for genomes and metagenomes
most recent commit 8 years ago
Opengene.jl ⭐ 61
(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia
most recent commit 2 years ago
Seq_io ⭐ 60
FASTA and FASTQ parsing in Rust
dependent packages 18total releases 12most recent commit 5 months agocargo seq_io} Downloads
Cobs ⭐ 58
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
most recent commit 2 years ago
The 7 Most Depended On Fasta Fastq Open Source Projects
Pyfastx ⭐ 211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
dependent packages 20total releases 68latest release November 25, 2023most recent commit 5 months agopypi pyfastx} Downloads
Seq_io ⭐ 60
FASTA and FASTQ parsing in Rust
dependent packages 18total releases 12latest release August 07, 2023most recent commit 5 months agocargo seq_io} Downloads
Dnaio ⭐ 52
Efficiently read and write sequencing data from Python
dependent packages 15total releases 23latest release November 20, 2023most recent commit 3 months agopypi dnaio} Downloads
Fastaq ⭐ 45
Python3 scripts to manipulate FASTA and FASTQ files
dependent packages 7total releases 21latest release February 19, 2018most recent commit 2 years agopypi pyfastaq} Downloads
Fuc ⭐ 38
Frequently used commands in bioinformatics
dependent packages 2total releases 44latest release September 09, 2023most recent commit 8 months agopypi fuc} Downloads
Fasta ⭐ 5
This package enables you to deal with biological sequence files easily.
dependent packages 1total releases 20latest release January 18, 2023most recent commit 8 months agopypi fasta} Downloads
Bioruby Faster ⭐ 9
A fast and simple parser for Fasta / FastQ files
dependent packages 1total releases 7latest release June 13, 2012most recent commit 12 years agorubygems bio-faster} Downloads
The 10 Latest Releases In Fasta Fastq Open Source Projects
Pyfastx ⭐ 211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
dependent packages 20total releases 68latest release November 25, 2023most recent commit 5 months agopypi pyfastx} Downloads
Dnaio ⭐ 52
Efficiently read and write sequencing data from Python
dependent packages 15total releases 23latest release November 20, 2023most recent commit 3 months agopypi dnaio} Downloads
Seqkit ⭐ 1,133
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
total releases 122latest release November 18, 2023most recent commit 3 months ago
Fuc ⭐ 38
Frequently used commands in bioinformatics
dependent packages 2total releases 44latest release September 09, 2023most recent commit 8 months agopypi fuc} Downloads
Seq_io ⭐ 60
FASTA and FASTQ parsing in Rust
dependent packages 18total releases 12latest release August 07, 2023most recent commit 5 months agocargo seq_io} Downloads
Rasusa ⭐ 156
Randomly subsample sequencing reads to a specified coverage
total releases 11latest release April 06, 2023most recent commit 4 months ago
Fasta ⭐ 5
This package enables you to deal with biological sequence files easily.
dependent packages 1total releases 20latest release January 18, 2023most recent commit 8 months agopypi fasta} Downloads
Henipipe ⭐ 6
Pipeline for CnR, CnT
total releases 82latest release December 28, 2022most recent commit 10 months ago
Demultiplex ⭐ 26
Versatile FASTA/FASTQ demultiplexer.
total releases 9latest release November 13, 2021most recent commit 7 months ago
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