Repositories list

• MEX-ArChIPelago

  Public
  This repository allows reproducing the MEX-ArChIPelago analysis

  Jupyter Notebook

  •0•0•0•0•Updated Nov 29, 2024Nov 29, 2024

• ibis-challenge

  Public
  Repository with source code and metadata for IBIS challenge

  Python

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

• NeMARA

  Public
  NeMARA

  Python

  •0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

• MixALime

  Public
  Python

  •1•6•0•0•Updated Nov 19, 2024Nov 19, 2024

• ASB-frontend

  Public
  TypeScript

  •1•0•0•0•Updated Nov 18, 2024Nov 18, 2024

• ASB-backend

  Public
  Python

  •1•0•0•8•Updated Nov 16, 2024Nov 16, 2024

• BABACHI

  Public
  Python

  •

  Other

  •0•3•1•0•Updated Nov 16, 2024Nov 16, 2024

• mixalime_simulation

  Public
  Reproduction material for numerical tests in a MixALime paper

  Python

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

• LegNet

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

  Jupyter Notebook

  •

  MIT License

  •3•29•0•0•Updated Oct 24, 2024Oct 24, 2024

• human_legnet

  Public
  Python

  •

  MIT License

  •0•5•0•0•Updated Oct 21, 2024Oct 21, 2024

• epifactors_webapp

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

  websiteepigenetics

  Ruby

  •1•0•0•2•Updated Sep 10, 2024Sep 10, 2024

• hocomoco_webapp

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

  websitemotifstfbs

  Ruby

  •0•0•0•6•Updated Sep 1, 2024Sep 1, 2024

• kmer-motif-enrichment

  Public
  Python

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

• ArmNet

  Public
  Python

  •

  MIT License

  •0•4•0•0•Updated Jul 30, 2024Jul 30, 2024

• opera_webface

  Public
  Webface for OperaHouse (included inside)

  Ruby

  •

  MIT License

  •0•0•0•6•Updated Jul 20, 2024Jul 20, 2024

• hocomoco_v9

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

  HTML

  •0•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

• sarus

  Public
  SPRY-SARUS motif scanner

  Java

  •0•2•1•0•Updated Feb 13, 2024Feb 13, 2024

• vigg_ribonanza

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

  Python

  •

  MIT License

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

• pasio

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

  Python

  •

  Other

  •2•1•0•1•Updated Nov 5, 2023Nov 5, 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

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

• motif_benchmarks

  Public
  Benchmarks collection for GRECO TFBS Benchmarking Initiative

  chip-seqpwmpbm+ 9pssmbinding-sitesfrequency-matrixmotifspfmtfbsweight-matrix+ 2

  C

  •

  MIT License

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

• draw_motif_logo

  Public
  Python3 scripts to draw motif logo in svg format

  Python

  •

  Other

  •1•0•0•0•Updated Mar 8, 2023Mar 8, 2023

• ADASTRA-pipeline

  Public
  Python

  •1•3•2•0•Updated Jan 2, 2023Jan 2, 2023

• dream2022

  Public
  DREAM 2022 -- autosome.org

  Python

  •0•0•0•0•Updated Aug 7, 2022Aug 7, 2022

• macro-perfectos-ape

  Public
  MACRO-APE and PERFECTOS-APE tools

  Java

  •1•2•1•0•Updated Jul 20, 2022Jul 20, 2022

• HT-SELEX-kmer-filtering

  Public
  K-mer filtering algorithm for HT-SELEX data processing

  Python

  •1•0•0•0•Updated Apr 22, 2022Apr 22, 2022

• MoLoTool

  Public
  Sequence Motif Location Tool (MoLoTool)

  JavaScript

  •1•0•0•0•Updated Mar 19, 2022Mar 19, 2022