SEACR: Sparse Enrichment Analysis for CUT&RUN
☆122Jan 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. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Analytical pipeline developed to anlayze Cut and Run data. Inspired by both Henikoff (SEACR) and Orkin (Cut&RunTools) lab pipelines.☆20May 26, 2025Updated last year
- ☆34Jul 20, 2018Updated 8 years ago
- Tutorial Website☆68Feb 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 …☆114Updated this week
- MACS -- Model-based Analysis of ChIP-Seq☆784Jul 7, 2026Updated last month
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Scripts and notebooks used in Akgol Oksuz et al. paper☆11Jan 18, 2021Updated 5 years ago
- Detecting sites of genomic enrichment☆204Updated this week
- CUT&RUN and CUT&Tag data processing and analysis☆115Mar 4, 2025Updated last year
- Tools to process and analyze deep sequencing data.☆764Updated this week
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆254Aug 3, 2026Updated last month
- ☆23Jan 20, 2021Updated 5 years ago
- IDR☆180Sep 18, 2018Updated 7 years ago
- Intro to ChIPseq using HPC☆324Jan 30, 2023Updated 3 years ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆267Aug 24, 2026Updated last week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Example scripts for analyzing CUT&RUN datasets☆13Oct 3, 2018Updated 7 years ago
- chromatin Variability Across Regions (of the genome!)☆195May 1, 2026Updated 4 months ago
- 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☆855Aug 5, 2024Updated 2 years ago
- ☆18May 12, 2023Updated 3 years ago
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆22Jun 4, 2023Updated 3 years ago
- ☆101Jun 16, 2026Updated 2 months ago
- Application for making ENCODE Blacklists☆347Apr 23, 2021Updated 5 years ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆148Apr 5, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- A collection of perl scripts for NGS analysis☆17Oct 2, 2024Updated last year
- Paired Genomic Loci Tool Suite☆35Nov 23, 2022Updated 3 years ago
- ENCODE ChIP-seq pipeline☆282Feb 15, 2024Updated 2 years ago
- Transposable element expression at unique loci in single cells with CELLO-seq☆12Jun 17, 2024Updated 2 years ago
- Docker for 4DN Hi-C processing pipeline☆62Nov 26, 2024Updated last year
- Simplify functional enrichment results☆127Jan 30, 2026Updated 7 months ago
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆72Nov 14, 2025Updated 9 months ago
- ENCODE ATAC-seq pipeline☆458Jul 18, 2024Updated 2 years ago
- FAN-C: Framework for the ANalysis of C-like data☆120Mar 13, 2024Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- HiC-Reg is a tool to predict Hi-C contact counts from one-dimensional regulatory signals☆11Aug 25, 2020Updated 6 years ago
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆44Jan 31, 2024Updated 2 years ago
- ☆11Sep 17, 2020Updated 5 years ago
- ☆42Sep 29, 2022Updated 3 years ago
- A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications☆43Aug 27, 2026Updated last week
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆464Feb 18, 2025Updated last year
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆44Jul 6, 2021Updated 5 years ago