☆100Jun 16, 2026Updated 2 weeks ago
Alternatives and similar repositories for ChromHMM
Users that are interested in ChromHMM are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆16Jan 2, 2024Updated 2 years ago
- ChromDiff program as described in Yen and Kellis, Nature Communications 2015.☆14May 12, 2016Updated 10 years ago
- Data of genome annotation from full-stack ChromHMM model trained with 1032 datasets from 127 reference epigenomes☆40Jul 9, 2024Updated last year
- ☆15Oct 19, 2023Updated 2 years ago
- miRTrace☆13Jun 14, 2023Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Short Time-series Expression Miner (STEM) and Dynamic Regulatory Events Miner (DREM)☆21Jun 16, 2026Updated 2 weeks ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Jul 6, 2021Updated 4 years ago
- CRCmapper: map core regulatory circuitry☆14Nov 23, 2020Updated 5 years ago
- Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.☆16Apr 12, 2014Updated 12 years ago
- MACS -- Model-based Analysis of ChIP-Seq☆776Jun 17, 2026Updated 2 weeks ago
- R package to evaluate reproducibility of Hi-C data☆10Mar 16, 2023Updated 3 years ago
- scripts used for processing and analyzing data in the article.☆13Oct 31, 2019Updated 6 years ago
- A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications☆42Feb 22, 2022Updated 4 years ago
- Enriched Domain Detector for ChIP-seq data☆16Aug 17, 2022Updated 3 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.
- Application for semi-automated genomic annotation.☆19Jun 10, 2026Updated 3 weeks ago
- Joint normalization of two Hi-C matrices, visualization and detection of differential chromatin interactions. See multiHiCcompare for the…☆23Jun 4, 2023Updated 3 years ago
- Genome databases generation pipeline for ngs.plot and region_analysis.☆17Sep 8, 2015Updated 10 years ago
- Applying IDR analysis to Homer peaks.☆16May 8, 2020Updated 6 years ago
- COMETgazer mehylation analysis software suite☆10Jul 21, 2019Updated 6 years ago
- Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data☆34Jul 14, 2017Updated 8 years ago
- SEACR: Sparse Enrichment Analysis for CUT&RUN☆122Jan 15, 2023Updated 3 years ago
- Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…☆95Aug 29, 2022Updated 3 years ago
- nucleosome calling using ATAC-seq☆112Dec 20, 2020Updated 5 years ago
- 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.
- Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps☆71Dec 16, 2022Updated 3 years ago
- ☆22Aug 11, 2020Updated 5 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆27Oct 14, 2025Updated 8 months ago
- Download binary executables and sample data here:☆18Oct 28, 2016Updated 9 years ago
- ENCODE Uniform processing pipeline for ChIP-seq☆126Mar 23, 2020Updated 6 years ago
- This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…☆62Jul 20, 2020Updated 5 years ago
- PARE: a computational method to Predict Active Regulatory Elements☆11Aug 8, 2025Updated 10 months ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆83Jan 24, 2025Updated last year
- Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter☆19Feb 20, 2018Updated 8 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆34May 20, 2026Updated last month
- HMMRATAC peak caller for ATAC-seq data☆100Nov 12, 2024Updated last year
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆69Nov 14, 2025Updated 7 months ago
- Genome-wide contact analysis using sklearn☆76Mar 23, 2024Updated 2 years ago
- Snakemake library for bioinformatics programs, with a focus on next-generation sequencing☆22Feb 4, 2016Updated 10 years ago
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆441Mar 28, 2024Updated 2 years ago
- ☆42Apr 15, 2021Updated 5 years ago