Repositories list

• hocomoco_webapp

  Public
  Web-site for HOCOMOCO collection of transcription factor binding sites motifs.

  websitemotifstfbs

  websitemotifstfbs

  Ruby

  •00 forks•00 stars•00 issues•22 pull requests•Updated May 4, 2026May 4, 2026

• parade

  Public
  Jupyter Notebook

  •

  MIT License

  •33 forks•55 stars•00 issues•00 pull requests•Updated May 4, 2026May 4, 2026

• MPRA-MNIST

  Public
  MPRA-MNIST datasets

  Jupyter Notebook

  •11 fork•77 stars•00 issues•00 pull requests•Updated May 4, 2026May 4, 2026

• MixALime

  Public
  Mixture Models for Allelic Imbalance Estimation

  geneticsasvallele-specific+ 2

  geneticsasvallele-specificallele-specific-expressionallelic-imbalance

  Python

  •11 fork•1111 stars•00 issues•00 pull requests•Updated Apr 21, 2026Apr 21, 2026

• opera_webface

  Public
  Webface for OperaHouse (included inside)

  Ruby

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• epifactors_webapp

  Public
  Web-site for EpiFactors database of epigenetic factors, corresponding genes and products.

  websiteepigenetics

  websiteepigenetics

  Ruby

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• MARADONER

  Public
  Motif Response Analysis Done Right

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 5, 2026Apr 5, 2026

• perspectives-on-codebook-allele-specificity

  Public
  "Perspectives on Codebook: sequence specificity of uncharacterized human transcription factors" — allele specificity analysis

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 4, 2026Apr 4, 2026

• ArChIPelago

  Public
  ArChIPelago — the arrangement of multiple position weight matrices with ChIP-Seq and machine learning for prediction of transcription factor binding sites

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 30, 2026Mar 30, 2026

• ArChIPelago-TFBS-finder

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 11, 2026Feb 11, 2026

• fantomus-clustering

  Public
  FANTOMUS: Pipeline for clustering CAGE-seq bigWig files into promoters and enhancers using cagefightr

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 2, 2026Feb 2, 2026

• ibis-challenge

  Public
  Repository with source code and metadata for IBIS challenge

  Python

  •11 fork•33 stars•00 issues•00 pull requests•Updated Jan 20, 2026Jan 20, 2026

• sequence_logo

  Public
  SequenceLogo is a tool for drawing sequence logos of motifs

  Ruby

  •

  MIT License

  •11 fork•11 star•00 issues•11 pull request•Updated Jan 15, 2026Jan 15, 2026

• maradoner-benchmark

  Public
  MARADONER: Simulation studies

  Raku

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 10, 2026Jan 10, 2026

• BABACHI

  Public
  Python

  •

  Other

  •00 forks•33 stars•11 issue•00 pull requests•Updated Dec 14, 2025Dec 14, 2025

• hocomoco_v9

  Public
  Old version of HOCOMOCO TFBS motif database, version 9: https://autosome.ru/HOCOMOCO

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 19, 2025Nov 19, 2025

• postibis

  Public
  IBIS post-challenge models training and testing

  Jupyter Notebook

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 15, 2025Oct 15, 2025

• IBIS-rSNP

  Public
  IBIS rSNP benchmarking

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 28, 2025Aug 28, 2025

• sarus

  Public
  SPRY-SARUS motif scanner

  Java

  •00 forks•33 stars•11 issue•00 pull requests•Updated Jul 23, 2025Jul 23, 2025

• LegNet

  Public
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays

  Jupyter Notebook

  •

  MIT License

  •44 forks•4444 stars•00 issues•00 pull requests•Updated Jul 3, 2025Jul 3, 2025

• greco-bit-data-processing

  Public
  Ruby

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 16, 2025Jun 16, 2025

• TSV_data_for_Codebook_MEX_figures

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Jun 15, 2025Jun 15, 2025

• MEX-ArChIPelago

  Public
  This repository allows reproducing the MEX-ArChIPelago analysis

  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 30, 2025May 30, 2025

• ASB-frontend

  Public
  TypeScript

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 22, 2025Apr 22, 2025

• ASB-backend

  Public
  Python

  •11 fork•00 stars•00 issues•88 pull requests•Updated Apr 13, 2025Apr 13, 2025

• ArmNet

  Public
  Python

  •

  MIT License

  •00 forks•44 stars•00 issues•00 pull requests•Updated Jan 11, 2025Jan 11, 2025

• pasio

  Public
  Pasio is a tool for denoising profiles coming from DNA-sequencing data like ATAC-seq, DNA-seq or ChIP-seq.

  Python

  •

  Other

  •33 forks•11 star•00 issues•11 pull request•Updated Dec 30, 2024Dec 30, 2024

• mixalime_simulation

  Public
  Reproduction material for numerical tests in the MixALime paper

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 7, 2024Nov 7, 2024

• human_legnet

  Public
  Python

  •

  MIT License

  •22 forks•1616 stars•00 issues•00 pull requests•Updated Oct 21, 2024Oct 21, 2024

• kmer-motif-enrichment

  Public
  Python

  •11 fork•11 star•00 issues•00 pull requests•Updated Aug 29, 2024Aug 29, 2024