SEACR: Sparse Enrichment Analysis for CUT&RUN
☆120Jan 15, 2023Updated 3 years ago
Alternatives and similar repositories for SEACR
Users that are interested in SEACR are comparing it to the libraries listed below
Sorting:
- ☆32Jul 20, 2018Updated 7 years ago
- Analytical pipeline developed to anlayze Cut and Run data. Inspired by both Henikoff (SEACR) and Orkin (Cut&RunTools) lab pipelines.☆19May 26, 2025Updated 9 months ago
- Tutorial Website☆65Feb 1, 2021Updated 5 years ago
- Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream …☆109Feb 17, 2026Updated 2 weeks ago
- MACS -- Model-based Analysis of ChIP-Seq☆767Feb 27, 2026Updated last week
- Detecting sites of genomic enrichment☆199May 8, 2023Updated 2 years ago
- CUT&RUN and CUT&Tag data processing and analysis☆113Mar 4, 2025Updated last year
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆23Jun 4, 2023Updated 2 years ago
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆240Dec 2, 2025Updated 3 months ago
- IDR☆175Sep 18, 2018Updated 7 years ago
- Tools to process and analyze deep sequencing data.☆751Jul 23, 2025Updated 7 months ago
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- Intro to ChIPseq using HPC☆320Jan 30, 2023Updated 3 years ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆246Jan 31, 2026Updated last month
- ☆23Jan 20, 2021Updated 5 years ago
- ☆18May 12, 2023Updated 2 years ago
- chromatin Variability Across Regions (of the genome!)☆185Jul 10, 2024Updated last year
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆41Feb 14, 2022Updated 4 years ago
- ChIP-seq analysis notes from Ming Tang☆842Aug 5, 2024Updated last year
- Example scripts for analyzing CUT&RUN datasets☆13Oct 3, 2018Updated 7 years ago
- A collection of perl scripts for NGS analysis☆17Oct 2, 2024Updated last year
- ☆19Jun 8, 2023Updated 2 years ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆144Apr 5, 2024Updated last year
- Application for making ENCODE Blacklists☆334Apr 23, 2021Updated 4 years ago
- ENCODE ChIP-seq pipeline☆277Feb 15, 2024Updated 2 years ago
- A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications☆41Feb 22, 2022Updated 4 years ago
- ☆95Jul 6, 2025Updated 8 months ago
- A shiny-based web tool for interactive analysis of DepMap data☆24Feb 13, 2021Updated 5 years ago
- ☆40Sep 29, 2022Updated 3 years ago
- Simplify functional enrichment results☆124Jan 30, 2026Updated last month
- Peak caller for CUT&TAG data☆30Aug 18, 2022Updated 3 years ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆315Nov 1, 2022Updated 3 years ago
- Allele-specific alignment sorting☆61Jan 7, 2023Updated 3 years ago
- FAN-C: Framework for the ANalysis of C-like data☆122Mar 13, 2024Updated last year
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆276Nov 6, 2025Updated 4 months ago
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆447Feb 18, 2025Updated last year
- ☆292Updated this week
- An R interface to the MEME Suite☆54Jan 7, 2026Updated last month
- perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)☆67Jun 7, 2019Updated 6 years ago