Repositories list

• MARADONER

  Public
  Motif Response Analysis Done Right

  Python

  •0•0•0•0•Updated Oct 29, 2025Oct 29, 2025

• hocomoco_webapp

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

  websitemotifstfbs

  Ruby

  •0•0•0•6•Updated Oct 21, 2025Oct 21, 2025

• postibis

  Public
  IBIS post-challenge models training and testing

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Oct 15, 2025Oct 15, 2025

• MixALime

  Public
  Mixture Models for Allelic Imbalance Estimation

  geneticsasvallele-specific+ 2allele-specific-expressionallelic-imbalance

  Python

  •1•10•0•0•Updated Oct 13, 2025Oct 13, 2025

• opera_webface

  Public
  Webface for OperaHouse (included inside)

  Ruby

  •

  MIT License

  •0•0•0•6•Updated Sep 25, 2025Sep 25, 2025

• parade

  Public
  Jupyter Notebook

  •

  MIT License

  •3•3•0•0•Updated Sep 18, 2025Sep 18, 2025

• IBIS-rSNP

  Public
  IBIS rSNP benchmarking

  Jupyter Notebook

  •0•0•0•0•Updated Aug 28, 2025Aug 28, 2025

• sarus

  Public
  SPRY-SARUS motif scanner

  Java

  •0•2•1•0•Updated Jul 23, 2025Jul 23, 2025

• BABACHI

  Public
  Python

  •

  Other

  •0•4•1•0•Updated Jul 8, 2025Jul 8, 2025

• LegNet

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

  Jupyter Notebook

  •

  MIT License

  •4•42•0•0•Updated Jul 3, 2025Jul 3, 2025

• greco-bit-data-processing

  Public
  Ruby

  •0•0•0•0•Updated Jun 16, 2025Jun 16, 2025

• TSV_data_for_Codebook_MEX_figures

  Public
  0•0•0•0•Updated Jun 15, 2025Jun 15, 2025

• MEX-ArChIPelago

  Public
  This repository allows reproducing the MEX-ArChIPelago analysis

  Jupyter Notebook

  •0•0•0•0•Updated May 30, 2025May 30, 2025

• hocomoco_v9

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

  HTML

  •0•0•0•0•Updated May 15, 2025May 15, 2025

• ASB-frontend

  Public
  TypeScript

  •1•0•0•0•Updated Apr 22, 2025Apr 22, 2025

• ASB-backend

  Public
  Python

  •1•0•0•8•Updated Apr 13, 2025Apr 13, 2025

• epifactors_webapp

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

  websiteepigenetics

  Ruby

  •1•0•0•2•Updated Jan 15, 2025Jan 15, 2025

• ArmNet

  Public
  Python

  •

  MIT License

  •0•4•0•0•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

  •3•1•0•1•Updated Dec 30, 2024Dec 30, 2024

• ibis-challenge

  Public
  Repository with source code and metadata for IBIS challenge

  Python

  •1•1•0•0•Updated Nov 26, 2024Nov 26, 2024

• mixalime_simulation

  Public
  Reproduction material for numerical tests in a MixALime paper

  Python

  •0•0•0•0•Updated Nov 7, 2024Nov 7, 2024

• human_legnet

  Public
  Python

  •

  MIT License

  •2•15•0•0•Updated Oct 21, 2024Oct 21, 2024

• kmer-motif-enrichment

  Public
  Python

  •1•1•0•0•Updated Aug 29, 2024Aug 29, 2024

• MoLoTool-2.0

  Public
  Sequence Motif Location Tool (MoLoTool)

  JavaScript

  •2•0•0•0•Updated Jul 11, 2024Jul 11, 2024

• PBM_preprocessing

  Public
  Ruby

  •0•0•0•0•Updated Jun 22, 2024Jun 22, 2024

• UDACHA_pipeline

  Public
  Python

  •0•0•0•0•Updated May 28, 2024May 28, 2024

• vigg_ribonanza

  Public
  Source code of the Stanford Ribonanza RNA Folding first place solution

  Python

  •

  MIT License

  •5•40•1•0•Updated Dec 21, 2023Dec 21, 2023

• sequence_logo

  Public
  SequenceLogo is a tool for drawing sequence logos of motifs

  Ruby

  •

  MIT License

  •1•1•0•1•Updated Oct 31, 2023Oct 31, 2023

• hocomoco_rsnp_benchmarks

  Public
  Python

  •1•0•0•0•Updated Sep 27, 2023Sep 27, 2023

• motif_benchmarks

  Public
  Benchmarks collection for GRECO TFBS Benchmarking Initiative

  benchmarkschip-seqpwm+ 9pbmpssmbinding-sitesfrequency-matrixmotifspfmtfbs+ 2

  C

  •

  MIT License

  •0•3•0•0•Updated Aug 15, 2023Aug 15, 2023