Repositories list

• CSND

  Public
  Gene expression, epigenetics and disease CSND course.

  0•0•0•0•Updated Jan 24, 2025Jan 24, 2025

• Tjalsma_2025

  Public
  Long-range enhancer-controlled genes are hyper-sensitive to regulatory factor perturbations.

  R

  •0•0•0•0•Updated Jan 24, 2025Jan 24, 2025

• HbF_react

  Public
  ATAC and C&R coverage plots for "Enhancer distance matters: forced linear recruitment of a super-enhancer strongly reactivates the developmentally silenced fetal HBG globin genes"

  R

  •0•0•0•0•Updated Sep 13, 2024Sep 13, 2024

• pipe4C

  Public
  4C-seq processing pipeline

  R

  •17•23•2•0•Updated Apr 17, 2024Apr 17, 2024

• triplix

  Public
  An interface and processing pipeline for multi-contact spatial genomics data

  genomicsmulti-contactgenome-structure

  Python

  •

  MIT License

  •0•0•0•0•Updated Nov 7, 2023Nov 7, 2023

• PLIER

  Public
  Detecting chromosomal rearrangements from targeted proximity-ligation data

  Python

  •1•2•0•0•Updated Mar 6, 2023Mar 6, 2023

• PCNA-NAQ-seq

  Public
  R

  •0•0•0•0•Updated Jul 12, 2022Jul 12, 2022

• peakHiC

  Public
  peakHiC method to identify 3D chromatin interactions (loops) from HiC data

  R

  •1•5•2•0•Updated May 31, 2021May 31, 2021

• mc4c_py

  Public
  A python based approach to processing MC4C data

  Python

  •

  Other

  •2•2•0•0•Updated Mar 19, 2020Mar 19, 2020

• peakHiC_trackHub

  Public
  peakHiC V4C bigWig tracks for import into e.g. UCSC genome browser

  0•1•0•0•Updated Jan 9, 2020Jan 9, 2020

• mc4c_test-data

  Public
  This is a reduced MC-4C dataset provided to be used as a test case for running MC-4C pipeline. The MC-4C pipeline can be freely downloaded from: https://github.com/deLaatLab/mc4c_py

  0•0•0•0•Updated May 27, 2019May 27, 2019

• MG-NIPD

  Public
  Non-invasive prenatal diagnostics for monogenic diseases

  R

  •3•5•2•0•Updated Nov 2, 2018Nov 2, 2018