Top 14 Fastum Open-Source Projects

• seqkit

  3 1,210 8.5 Go

  A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

Project mention: A look at the Mojo language for bioinformatics | news.ycombinator.com | 2024-02-11

I've been thinking to learn Rust for these use cases, but always get frustrated with the complexity.

I find Go is a great middle-ground though! And now there starts to be a few more bio-related tools and toolkits out there, including:

- https://github.com/vertgenlab/gonomics

- https://github.com/biogo/biogo

- https://github.com/shenwei356/bio

... except from there being some really popular bio tools written in Go, like:

- https://github.com/shenwei356/seqkit

• poly

  24 653 8.1 Go

  A Go package for engineering organisms.

  

Project mention: Looking for an Open Source project to participate in for Google Summer of Code | /r/golang | 2023-12-10

• InfluxDB

  www.influxdata.com featured

  Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.

  

• jupyter-renderers

  1 484 5.2 HTML

  Renderers and renderer extensions for JupyterLab

  

• SeqAn

  0 458 7.4 C++

  SeqAn's official repository.

  

• pyfaidx

  1 442 6.7 Python

  Efficient pythonic random access to fasta subsequences

• seqan3

  1 389 8.9 C++

  The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

  

• pydna

  1 155 9.4 Jupyter Notebook

  Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.

• SaaSHub

  www.saashub.com featured

  SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives

  

• genozip

  2 149 9.1 C

  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

• reCOGnizer

  9 27 7.4 HTML

  A tool for domain based annotation with databases from the Conserved Domains Database

• biomisc_R

  3 23 0.0 R

  command line bioinformatic scripts written in R

• FastaParser

  1 17 4.4 Python

  A Python FASTA file Parser and Writer.

• bionim

  1 12 0.0 Nim

  A collection of useful algorithms and data structures for bioinformatics

• biomisc

  2 8 4.5 Python

  collection of miscellaneous command line bioinformatic scripts

• biomisc_julia

  1 1 1.8 Julia

  collection of miscellaneous command line bioinformatic scripts written in julia for speed

• SaaSHub

  www.saashub.com featured

  SaaSHub - Software Alternatives and Reviews. SaaSHub helps you find the best software and product alternatives

  

Fasta related posts

• Help with understanding awk code

  2 projects | /r/bash | 19 May 2023

• Is there a way to achieve a similar COG annotation for Haloferax mediterranei?

  1 project | /r/bioinformatics | 10 Apr 2023

• Is there a way to achieve a similar COG annotation for Haloferax mediterranei?

  1 project | /r/proteomics | 10 Apr 2023

• Training resources for Biopython?

  2 projects | /r/bioinformatics | 8 Apr 2023

• parse a fasta file using regex

  2 projects | /r/bioinformatics | 28 Sep 2022

• Why do some HMMs come with a separate score table instead of embedding in as cut_ga, cut_tc, or cut_nc?

  1 project | /r/bioinformatics | 19 Jun 2022

• Problems using Prokka

  2 projects | /r/bioinformatics | 29 Mar 2022
• A note from our sponsor - SaaSHub
  www.saashub.com | 21 May 2024

  SaaSHub helps you find the best software and product alternatives Learn more →

Index

Sponsored

SaaSHub - Software Alternatives and Reviews

SaaSHub helps you find the best software and product alternatives

www.saashub.com