Alternatives and similar repositories for epic

Users that are interested in epic are comparing it to the libraries listed below

• dariober / SICERpy

  View on GitHub
  Python wrapper around the popular ChIP-Seq peak caller SICER
  ☆15Dec 7, 2017Updated 8 years ago
• biocore-ntnu / epic2

  View on GitHub
  Ultraperformant reimplementation of SICER
  ☆58Dec 1, 2025Updated 2 months ago
• yuzhang123 / IDEAS

  View on GitHub
  ☆10Dec 12, 2017Updated 8 years ago
• your-highness / normR

  View on GitHub
  Normalization and difference calling for Next Generation Sequencing (NGS) data via joint multinomial modeling.
  ☆11Oct 8, 2021Updated 4 years ago
• CollasLab / edd

  View on GitHub
  Enriched Domain Detector for ChIP-seq data
  ☆16Aug 17, 2022Updated 3 years ago
• kimpenn / VERSE

  View on GitHub
  A versatile and efficient RNA-Seq read counting tool
  ☆16Mar 30, 2016Updated 9 years ago
• tjparnell / biotoolbox

  View on GitHub
  Tools for querying and analysis of genomic data
  ☆27Oct 26, 2025Updated 3 months ago
• fstrozzi / Fastool

  View on GitHub
  Simple and quick FastQ and FastA tool for file reading and conversion
  ☆17Jul 11, 2014Updated 11 years ago
• robertaboukhalil / ginkgo

  View on GitHub
  Cloud-based single-cell copy-number variation analysis tool
  ☆53Mar 21, 2023Updated 2 years ago
• mahmoudibrahim / JAMM

  View on GitHub
  JAMM Peak Finder for Sequencing Datasets
  ☆30Mar 12, 2020Updated 5 years ago
• GregoryFaust / yaha

  View on GitHub
  yaha: a flexible, sensitive and accurate DNA alignment tool designed to find optimal split-read mappings on single-end queries from 100bp…
  ☆20Dec 6, 2017Updated 8 years ago
• BilkentCompGen / hercules

  View on GitHub
  Profile HMM-based hybrid error correction algorithm for long reads
  ☆21Aug 15, 2018Updated 7 years ago
• Grice-Lab / AlignerBoost

  View on GitHub
  AlignerBoost is a generalized software toolkit for boosting Next-Gen sequencing mapping precision using a Bayesian based mapping quality …
  ☆11Mar 1, 2022Updated 3 years ago
• rifathamoudi / COMETgazer

  View on GitHub
  COMETgazer mehylation analysis software suite
  ☆10Jul 21, 2019Updated 6 years ago
• cfce / chilin

  View on GitHub
  ChIP-seq DC and QC Pipeline
  ☆36Mar 19, 2021Updated 4 years ago
• ratschlab / mmr

  View on GitHub
  A tool for Read Multi-Mapper Resolution
  ☆24Feb 15, 2017Updated 8 years ago
• kdkorthauer / dmrseq

  View on GitHub
  R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing
  ☆62May 9, 2025Updated 9 months ago
• biogo / examples

  View on GitHub
  example applications built using bíogo
  ☆18Apr 19, 2021Updated 4 years ago
• steinmann / peakzilla

  View on GitHub
  Peakzilla is a self-learning algorithm to identify transcription factor binding sites from ChIP-seq data. I would be very happy if you tr…
  ☆21Aug 18, 2025Updated 5 months ago
• gcyuan / diHMM

  View on GitHub
  ☆15Oct 19, 2023Updated 2 years ago
• hitbc / LAMSA

  View on GitHub
  Long Approximate Matches-based Split Aligner
  ☆13Apr 6, 2017Updated 8 years ago
• smithlabcode / walt

  View on GitHub
  WALT is a read mapping program for bisulfite sequencing DNA methylation studies.
  ☆17Aug 23, 2022Updated 3 years ago
• songlab / chance

  View on GitHub
  Download binary executables and sample data here:
  ☆18Oct 28, 2016Updated 9 years ago
• nskvir / RepEnrich

  View on GitHub
  RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆28Feb 14, 2022Updated 4 years ago
• rajanil / msCentipede

  View on GitHub
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Aug 17, 2016Updated 9 years ago
• benedictpaten / marginAlign

  View on GitHub
  UCSC Nanopore
  ☆44Aug 11, 2019Updated 6 years ago
• tacorna / taco

  View on GitHub
  Multi-sample transcriptome assembly from RNA-Seq
  ☆25Jun 10, 2018Updated 7 years ago
• Bohdan-Khomtchouk / HeatmapGenerator

  View on GitHub
  Cross-platform GUI desktop application for making biological heatmaps
  ☆19Nov 10, 2022Updated 3 years ago
• douglasgscofield / PacBio-utilities

  View on GitHub
  Collection of utilities for working with PacBio-based assemblies
  ☆13Apr 2, 2023Updated 2 years ago
• nboley / idr

  View on GitHub
  IDR
  ☆175Sep 18, 2018Updated 7 years ago
• hms-dbmi / spp

  View on GitHub
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆43Jul 6, 2021Updated 4 years ago
• aquaskyline / SOAP3-dp

  View on GitHub
  To tackle the exponentially increasing throughput of Next-Generation Sequencing (NGS), most of the existing short-read aligners can be co…
  ☆31Dec 26, 2023Updated 2 years ago
• LUMC / kPAL

  View on GitHub
  Analysis toolkit and programming library for k-mer profiles
  ☆31Mar 11, 2021Updated 4 years ago
• roryk / bcbio.rnaseq

  View on GitHub
  Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …
  ☆24Dec 11, 2017Updated 8 years ago
• brentp / bigwig-nim

  View on GitHub
  command-line querying+conversion of bigwigs and a nim wrapper for dpryan's libbigwig
  ☆16May 2, 2020Updated 5 years ago
• Malfoy / BGREAT

  View on GitHub
  de Bruijn Graph REAd mapping Tool
  ☆14Jul 12, 2017Updated 8 years ago
• sguizard / DensityMap

  View on GitHub
  DensityMap is perl tool for the visualization of features density along chromosomes
  ☆18May 12, 2022Updated 3 years ago
• bjpop / methpat

  View on GitHub
  A program for summarising CpG methylation patterns
  ☆20Sep 9, 2016Updated 9 years ago
• GreenleafLab / NucleoATAC

  View on GitHub
  nucleosome calling using ATAC-seq
  ☆110Dec 20, 2020Updated 5 years ago