Repositories list

• FALCON2

  Public
  A tool to infer metagenomic sample composition

  C

  •

  GNU General Public License v3.0

  •0•3•0•0•Updated Mar 25, 2026Mar 25, 2026

• jarvis3

  Public
  Efficient compression of biological data

  dnadata-compressiondna-sequences

  dnadata-compressiondna-sequences

  C

  •

  GNU General Public License v3.0

  •0•7•0•0•Updated Mar 14, 2026Mar 14, 2026

• alcor

  Public
  Alignment-free simulation, computation, and visualization of Low-compexity regions in biological data

  bioinformaticssimulationtoolkit+ 4

  bioinformaticssimulationtoolkitinformation-theorydata-analysisalignment-freedata-complexity

  C

  •

  GNU General Public License v3.0

  •2•11•0•0•Updated Mar 5, 2026Mar 5, 2026

• GeAnno

  Public
  Automatic Annotation of Plant Gene Regions with Machine Learning

  Jupyter Notebook

  •

  MIT License

  •0•2•0•0•Updated Mar 4, 2026Mar 4, 2026

• altair

  Public
  AltaiR: a C toolkit for alignment-free and temporal analysis of multi-FASTA data

  toolkitdata-analysisdata-compression+ 2

  toolkitdata-analysisdata-compressionalignment-freetemporal-analysis

  C

  •

  GNU General Public License v3.0

  •1•10•0•0•Updated Mar 4, 2026Mar 4, 2026

• OAWK

  Public
  Shell

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Feb 19, 2026Feb 19, 2026

• GenomeClass

  Public
  Classification and Analysis of genomes using Explainable Machine Learning

  C

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Feb 18, 2026Feb 18, 2026

• ox

  Public
  A toolkit for sequence data analysis

  C

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Nov 21, 2025Nov 21, 2025

• spark

  Public
  This program schools, simulates, and searches for exact or approximate Turing Machines (TMs) with specific characteristics.

  information-theoryturing-machinealgorithms-and-data-structures

  information-theoryturing-machinealgorithms-and-data-structures

  C

  •

  GNU General Public License v3.0

  •1•2•0•0•Updated May 21, 2025May 21, 2025

• mfcompress

  Public
  A compression tool specifically designed for FASTA and multi-FASTA files using finite-context models and arithmetic coding

  C

  •0•3•0•0•Updated May 7, 2025May 7, 2025

• OptimJV3

  Public
  Optimize compression parameters of Jarvis3

  Shell

  •

  GNU General Public License v3.0

  •0•2•0•0•Updated Apr 10, 2025Apr 10, 2025

• cobilab.github.io

  Public
  Cobilab website

  websitecobilab

  websitecobilab

  JavaScript

  •

  MIT License

  •2•2•0•0•Updated Mar 26, 2025Mar 26, 2025

• magnet

  Public
  An ultra-fast and high-sensitive tool to filter specific DNA content

  data-compressionmagnetexogenous+ 4

  data-compressionmagnetexogenousalignment-freeancient-dna-sequencesendogenousancient-genomes

  C

  •

  GNU General Public License v3.0

  •3•2•0•1•Updated Mar 5, 2025Mar 5, 2025

• CompressSequences

  Public
  How compressible are sequences?

  Shell

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Feb 19, 2025Feb 19, 2025

• cpm-fcm

  Public
  An encoder for biological sequences using Copy Models and Finite-context models

  data-compressionbiological-sequences

  data-compressionbiological-sequences

  GNU General Public License v3.0

  •0•2•0•0•Updated Feb 10, 2025Feb 10, 2025

• FABench

  Public
  Shell

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Dec 5, 2024Dec 5, 2024

• ac2

  Public
  An efficient amino acid sequence compressor using Neural Networks

  protein-sequencesdata-compressionalgorithms-and-data-structures

  protein-sequencesdata-compressionalgorithms-and-data-structures

  C

  •

  GNU General Public License v3.0

  •3•6•0•0•Updated Oct 21, 2024Oct 21, 2024

• HumanGenome

  Public
  How compressible is a human genome sequence?

  benchmarkdata-compressionhuman-genome

  benchmarkdata-compressionhuman-genome

  Shell

  •

  GNU General Public License v3.0

  •1•6•0•0•Updated May 15, 2024May 15, 2024

• cryfa

  Public
  A secure encryption tool for genomic data

  encryptiongenomicskeygen+ 3

  encryptiongenomicskeygenfastq-formatcompactfasta-format

  C++

  •

  GNU General Public License v3.0

  •16•63•0•0•Updated Apr 14, 2024Apr 14, 2024

• geco2

  Public
  An improved compression tool for DNA sequences

  computational-biologydnadata-compression+ 3

  computational-biologydnadata-compressiondna-sequencesgenomicdna-compression

  C

  •

  GNU General Public License v3.0

  •2•9•0•0•Updated Mar 22, 2024Mar 22, 2024

• FASTA-ANALYSIS

  Public
  Sorting of DNA sequences within a Multi-Fasta file

  Shell

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Feb 22, 2024Feb 22, 2024

• MizaR

  Public
  A sorting method for encoding metagenomic data

  sortingdata-compressionfastq-files

  sortingdata-compressionfastq-files

  Shell

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Nov 7, 2023Nov 7, 2023

• gto

  Public
  A genomics-proteomics toolkit

  C

  •

  MIT License

  •13•47•0•1•Updated Oct 18, 2023Oct 18, 2023

• falcon

  Public
  A tool to infer metagenomic sample composition

  metagenomicsfalconcompression-algorithm+ 4

  metagenomicsfalconcompression-algorithmalignment-freeancient-dna-sequencesancientdnafalcon-meta

  C

  •

  GNU General Public License v3.0

  •7•20•0•0•Updated Oct 10, 2023Oct 10, 2023

• jarvis2

  Public
  Efficient DNA sequence compression

  data-compressionalgorithms-and-data-structuresgenomic-sequences+ 1

  data-compressionalgorithms-and-data-structuresgenomic-sequencesjarvis2

  C

  •

  GNU General Public License v3.0

  •3•4•0•0•Updated Jul 13, 2023Jul 13, 2023

• CassavaGenome

  Public
  How compressible is a Cassava genome sequence?

  benchmarkdata-compressioncassava-genome

  benchmarkdata-compressioncassava-genome

  Shell

  •

  GNU General Public License v3.0

  •1•2•0•0•Updated May 30, 2023May 30, 2023

• SynTegra

  Public
  A computational tool for simulation of viral synthetic integrations

  C

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Mar 15, 2023Mar 15, 2023

• jarvis

  Public
  Efficient lossless compression of genomic sequences

  compressionjarvisgenome-compression

  compressionjarvisgenome-compression

  C

  •

  GNU General Public License v3.0

  •2•8•0•0•Updated Jan 25, 2023Jan 25, 2023

• geco3

  Public
  An efficient DNA sequence compressor using Neural Networks

  neural-networkscompression-algorithmdna-sequences

  neural-networkscompression-algorithmdna-sequences

  C

  •

  GNU General Public License v3.0

  •9•15•1•0•Updated Jan 25, 2023Jan 25, 2023

• RFSC

  Public
  Reference-Free Sequence Classification Tool for DNA sequences in metagenomic samples

  Shell

  •

  GNU General Public License v3.0

  •4•4•1•0•Updated Jun 9, 2022Jun 9, 2022