fasta
There are 424 repositories under fasta topic.
shenwei356/seqkit
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
torognes/vsearch
Versatile open-source tool for microbiome analysis
bebop/poly
A Go package for engineering organisms.
jupyterlab/jupyter-renderers
Renderers and renderer extensions for JupyterLab
seqan/seqan
SeqAn's official repository.
mdshw5/pyfaidx
Efficient pythonic random access to fasta subsequences
seqan/seqan3
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
edgardomortiz/vcf2phylip
Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
lmdu/pyfastx
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
samtools/htsjdk
A Java API for high-throughput sequencing data (HTS) formats.
bioSyntax/bioSyntax
Syntax highlighting for computational biology
mbhall88/rasusa
Randomly subsample sequencing reads or alignments
igordot/genomics
A collection of scripts and notes related to genomics and bioinformatics
pydna-group/pydna
Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
divonlan/genozip
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
Gabaldonlab/redundans
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
torognes/swarm
A robust and fast clustering method for amplicon-based studies
eead-csic-compbio/get_homologues
GET_HOMOLOGUES: a versatile software package for pan-genome analysis
telatin/seqfu2
:rocket: seqfu - Sequece Fastx Utilities
smaegol/PlasFlow
Software for prediction of plasmid sequences in metagenomic assemblies
chrovis/cljam
A DNA Sequence Alignment/Map (SAM) library for Clojure
evolbioinfo/goalign
Goalign is a set of command line tools and an API to manipulate multiple sequence alignments. It is implemented in Go language.
markschl/seq_io
FASTA and FASTQ parsing in Rust
josiahseaman/FluentDNA
FluentDNA allows you to browse sequence data of any size using a zooming visualization similar to Google Maps. You can use FluentDNA as a standalone program or as a python module for your own bioinformatics projects.
BioJulia/FASTX.jl
Parse and process FASTA and FASTQ formatted files of biological sequences.
muellan/metacache
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
KirillKryukov/naf
Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences
sbslee/fuc
Frequently used commands in bioinformatics
rcs333/VAPiD
VAPiD: Viral Annotation and Identification Pipeline
brentp/hts-python
pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)
OpenGene/UniqueKMER
Generate unique KMERs for every contig in a FASTA file
cartoonist/kseqpp
Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)
BioGenies/tidysq
tidy processing of biological sequences in R
maximilianh/multiSub
Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input directory and merges everything into a single output directory. Auto-detects input file formats. Can submit the results to multiple repositories from the command line.
JetBrains-Research/bioinf-commons
Bioinformatics library in Kotlin
jfjlaros/demultiplex
Versatile FASTA/FASTQ demultiplexer.