Repositories list

• GAMclust

  Public
  GAM-clustering: Metabolic Modules Derivig From RNAseq Data

  R

  •

  Other

  •0•2•1•0•Updated Jul 9, 2025Jul 9, 2025

• GADMA

  Public
  Genetic Algorithm for Demographic Model Analysis

  Python

  •

  Other

  •15•51•8•0•Updated Jun 28, 2025Jun 28, 2025

• samovar

  Public
  Algorithms package for generating model metagenomes with specified properties

  metagenomicsartificial-data

  Python

  •

  MIT License

  •0•6•0•0•Updated Jun 11, 2025Jun 11, 2025

• LinSeed

  Public
  Linseed: LINear Subspace identification for gene Expresion Deconvolution

  R

  •

  MIT License

  •10•30•6•0•Updated May 7, 2025May 7, 2025

• metafx

  Public
  MetaFX – library for feature extraction from whole-genome metagenome sequencing data

  bioinformaticsmetagenomicsfeature-extraction

  Shell

  •

  MIT License

  •1•11•0•0•Updated Feb 17, 2025Feb 17, 2025

• ctlab.github.io

  Public
  HTML

  •0•0•0•0•Updated Feb 13, 2025Feb 13, 2025

• parallel-rearrangements

  Public
  parallel rearrangements caller

  Python

  •

  MIT License

  •2•4•2•0•Updated Oct 6, 2024Oct 6, 2024

• mwcsr

  Public
  An R package for solving maximum-weight connected subrgaph problem and it's variants

  rcplex

  C++

  •

  Other

  •4•7•0•1•Updated Sep 9, 2024Sep 9, 2024

• metafast

  Public
  Fast metagenome analysis toolkit

  Java

  •

  MIT License

  •10•26•0•1•Updated Sep 3, 2024Sep 3, 2024

• HiCT

  Public
  Combines all HiCT-related repositories as submodules

  Dockerfile

  •

  MIT License

  •0•2•1•0•Updated Jun 26, 2024Jun 26, 2024

• HiCT_Library

  Public
  Library for interaction with Hi-C contact maps in HDF5 format

  Python

  •

  MIT License

  •0•0•0•0•Updated Jun 26, 2024Jun 26, 2024

• HiCT_JVM

  Public
  Interactive visualizer ad manual scaffolder of Hi-C contact maps. All-in-one Java-based implementation.

  visualizationjavagenome+ 17gradleopenlayershdf5hi-citmoscaffoldinghdf5-format+ 10

  Java

  •

  MIT License

  •0•1•7•0•Updated Jun 26, 2024Jun 26, 2024

• HiCT_Server

  Public
  Python

  •

  MIT License

  •0•0•0•0•Updated Jun 26, 2024Jun 26, 2024

• HiCT_Utils

  Public
  Utilities for interaction with HiCT library and data format.

  Python

  •

  MIT License

  •0•0•1•0•Updated Jun 26, 2024Jun 26, 2024

• HiCT_WebUI

  Public
  TypeScript

  •

  MIT License

  •0•0•0•0•Updated Jun 26, 2024Jun 26, 2024

• scNavigator

  Public
  Single Cell Navigator

  JavaScript

  •2•5•0•2•Updated May 15, 2024May 15, 2024

• BandageNG

  Public
  a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

  C++

  •

  GNU General Public License v3.0

  •105•1•0•0•Updated May 12, 2024May 12, 2024

• gatom

  Public
  Finding an Active Metabolic Module in Atom Transition Network

  R

  •

  Other

  •4•7•1•0•Updated Apr 30, 2024Apr 30, 2024

• metacherchant

  Public
  bioinformaticsmetagenomics

  Java

  •

  MIT License

  •9•18•2•2•Updated Jan 16, 2024Jan 16, 2024

• evoguess-ai

  Public
  Component for finding decomposition sets and estimating hardness of SAT instances.

  Python

  •

  MIT License

  •0•4•0•0•Updated Jan 15, 2024Jan 15, 2024

• true-dist-infer

  Public
  HTML

  •0•3•0•0•Updated Sep 15, 2023Sep 15, 2023

• GScour

  Public
  Genome-wide detection of positive selection

  positive-selectionbioinformatics

  Python

  •0•9•0•0•Updated Jun 6, 2023Jun 6, 2023

• evoguess

  Public
  Component EvoGuess v2.1 for finding decomposition sets and estimating hardness of SAT instances.

  Python

  •

  MIT License

  •1•2•0•0•Updated Jun 4, 2023Jun 4, 2023

• metafx_old

  Public archive
  Jupyter Notebook

  •

  MIT License

  •0•1•0•0•Updated May 23, 2023May 23, 2023

• dadi_adjoint_state

  Public
  The adjoint-state method for demographic inference

  Python

  •0•0•0•0•Updated May 21, 2023May 21, 2023

• virgo-solver

  Public
  Solver for SGMWCS and GMWCS problems

  Java

  •

  Other

  •1•3•0•0•Updated May 16, 2023May 16, 2023

• ITMO_FS

  Public
  Feature selection library in python

  machine-learningfeature-selection

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •38•147•7•5•Updated Feb 22, 2023Feb 22, 2023

• SCNPrep

  Public
  R

  •2•0•0•0•Updated Feb 21, 2023Feb 21, 2023

• itmo_parsat

  Public
  Probabilistic backdoor trees for SAT solving

  C++

  •0•1•0•0•Updated Dec 1, 2022Dec 1, 2022

• scn-pipeline

  Public
  scNavigator processing pipeline for scRNA-seq data

  Python

  •

  MIT License

  •1•3•0•0•Updated Nov 24, 2022Nov 24, 2022