Repositories list

• epiwraps

  Public
  Wrappers for dealing with and plotting epigenomics data

  R

  •

  GNU General Public License v3.0

  •11 fork•33 stars•11 issue•00 pull requests•Updated Apr 25, 2026Apr 25, 2026

• py3r_behaviour

  Public
  Python

  •

  MIT License

  •11 fork•33 stars•11 issue•11 pull request•Updated Apr 24, 2026Apr 24, 2026

• ethEpigen2026_material

  Public
  Material for the 2026 ETH course "Bioinformatic approaches to regulatory genomics and epigenomics"

  Shell

  •

  GNU General Public License v3.0

  •2222 forks•22 stars•00 issues•00 pull requests•Updated Apr 24, 2026Apr 24, 2026

• Labell3R

  Public
  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 24, 2026Apr 24, 2026

• hippoNucleiLabeler

  Public
  A cross-platform cell type labeler for single-nuclei RNA-seq from the mouse hippocampus

  R

  •00 forks•11 star•00 issues•00 pull requests•Updated Apr 13, 2026Apr 13, 2026

• TFBlearner

  Public
  R package with functionality for training classifiers to predict Transcription Factor Binding

  R

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 31, 2026Mar 31, 2026

• Parv_activation_sc_smallRNA_seq

  Public
  Code for analysis of single-cell small-RNA-sequencing data

  Python

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

• TFB_Prediction_Benchmark

  Public
  Preregistered under: https://osf.io/kv2tw/overview

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 19, 2026Jan 19, 2026

• TFB-analysis

  Public
  Repository containing scripts for employing TFBlearner

  HTML

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 19, 2026Jan 19, 2026

• thesis_code

  Public
  Code used for figures in the introduction and further supplementary information

  00 forks•00 stars•00 issues•00 pull requests•Updated Jan 13, 2026Jan 13, 2026

• pgboost-project

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 26, 2025Nov 26, 2025

• GrimACE_manuscript

  Public
  Python

  •

  GNU Affero General Public License v3.0

  •11 fork•11 star•00 issues•00 pull requests•Updated Nov 4, 2025Nov 4, 2025

• CRS_habituation

  Public
  Accompanying repository to the study on distinct molecular mechanisms of stress habituation in the mouse hippocampus

  R

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

• Kretschmer-et-al.2025

  Public
  Repository contains code and most necessary objects as well es folder structure to replicate plots from the paper, which were generated in R

  R

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

• YOLO-Training

  Public
  Python

  •

  GNU Affero General Public License v3.0

  •11k11k forks•00 stars•00 issues•00 pull requests•Updated Jun 10, 2025Jun 10, 2025

• BehaviorFlow

  Public
  Code package that allows meta analyses of unsupervised behavior results

  R

  •

  GNU General Public License v3.0

  •22 forks•2121 stars•11 issue•00 pull requests•Updated Jun 5, 2025Jun 5, 2025

• ethEpigen2025_materials

  Public
  Materials for the 2025 ETH course "Bioinformatic approaches to regulatory genomics and epigenomics"

  Shell

  •

  GNU General Public License v3.0

  •1919 forks•00 stars•00 issues•00 pull requests•Updated May 23, 2025May 23, 2025

• diffUTR

  Public
  The diffUTR R package streamlines differential exon usage (DEU) analyses, and leverages existing DEU tools and alternative poly-adenylation site databases to en…

  R

  •11 fork•77 stars•11 issue•11 pull request•Updated Oct 30, 2024Oct 30, 2024

• DTFAB

  Public
  Benchmark of methods for Differential TF activity from ATAC-seq data

  R

  •11 fork•22 stars•00 issues•00 pull requests•Updated Oct 14, 2024Oct 14, 2024

• enrichMiR

  Public
  miRNA target enrichment analysis

  R

  •11 fork•66 stars•11 issue•00 pull requests•Updated Jul 17, 2024Jul 17, 2024

• scanMiR

  Public
  A set of tools for scanning for miRNA binding sites and working with affinity models

  scanningmirnatdmd

  scanningmirnatdmd

  R

  •

  GNU General Public License v3.0

  •22 forks•66 stars•00 issues•00 pull requests•Updated Jul 16, 2024Jul 16, 2024

• ethEpigen2024_materials

  Public
  Materials for the 2024 ETH course "Bioinformatic approaches to regulatory genomics and epigenomics"

  HTML

  •

  GNU General Public License v3.0

  •1717 forks•00 stars•00 issues•00 pull requests•Updated May 31, 2024May 31, 2024

• scanMiRApp

  Public
  Shiny app (and further functionalities) for scanMiR

  R

  •00 forks•00 stars•33 issues•00 pull requests•Updated Mar 13, 2024Mar 13, 2024

• Privitera-et.-al.-2023

  Public
  Effects of different NA modulations on the acute stress response

  R

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 1, 2024Mar 1, 2024

• ethEpigen2023_materials

  Public
  Materials for the 2023 ETH course "Bioinformatic approaches to regulatory genomics and epigenomics"

  HTML

  •

  GNU General Public License v3.0

  •2525 forks•11 star•00 issues•00 pull requests•Updated Feb 11, 2024Feb 11, 2024

• Fischer-Kretschmer-et-al.-2023

  Public
  Code, objects and rendered rmarkdowns for

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 22, 2023Nov 22, 2023

• MG_A549

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 1, 2023Nov 1, 2023

• Glucorticoid-protacs

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 1, 2023Nov 1, 2023

• atac_frag_simulation

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 16, 2023Aug 16, 2023

• DTFAIB

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 16, 2023Aug 16, 2023