Alternatives and similar repositories for PHi-C:

Users that are interested in PHi-C are comparing it to the libraries listed below

• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆19Updated last year
• b2jia / jie
  A spatial genome aligner for analyzing multiplexed DNA-FISH imaging data.
  ☆18Updated last year
• agalitsyna / fontanka
  Fontanka is a set of tools to work with fountains in Hi-C data. It aims to provide a flexible Python API and specialized CLI for calling …
  ☆11Updated last year
• paulsengroup / hictkpy
  Python bindings for hictk: read and write .cool and .hic files directly from Python
  ☆14Updated last week
• nvictus / lavaburst
  Chromatin domains bursting with flavor
  ☆12Updated 5 years ago
• ay-lab / selfish
  SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
  ☆17Updated last year
• paulsengroup / hictk
  Blazing fast toolkit to work with .hic and .cool files
  ☆30Updated this week
• Roy-lab / grinch
  GRiNCH: Graph-Regularized NMF and Clustering for Hi-C
  ☆9Updated last year
• PouletAxel / SIP
  SIP: Significant Interaction Peak caller
  ☆14Updated this week
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆17Updated 2 years ago
• tjs23 / nuc_dynamics
  Particle dynamics and simulated annealing for chromosome structure calculation
  ☆29Updated last year
• klarman-cell-observatory / scPlot
  Single cell interactive plotting tools
  ☆23Updated 4 years ago
• agalitsyna / RedClib
  Red-C data processing
  ☆15Updated 2 years ago
• ysora / stripenn
  Architectural stripe detection from 3D genome conformation data
  ☆17Updated last year
• XiaoTaoWang / StripeCaller
  A toolkit for analyzing architectural stripes
  ☆19Updated 4 months ago
• jaymahat / scGROseq
  scGRO-seq analyses codes
  ☆12Updated last year
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated 10 months ago
• HuMingLab / SnapHiC
  SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data
  ☆41Updated last year
• nvictus / pybbi
  Python bindings to UCSC BigWig and BigBed library
  ☆32Updated last week
• XiaoTaoWang / Best-Labs-of-3D-Genome
  Data and the co-authored network I extracted for lab selection in 3D genome research field
  ☆14Updated 3 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 5 years ago
• Vivianstats / scLink
  Inferring gene co-expression networks from single cell gene expression data
  ☆24Updated 2 years ago
• matsengrp / sumrep
  Summary statistics for repertoires
  ☆16Updated 2 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• satijalab / scChromHMM
  🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…
  ☆28Updated 3 years ago
• meuleman / epilogos
  Methods for summarizing and visualizing multi-biosample functional genomic annotations
  ☆45Updated last month
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated last year
• cole-trapnell-lab / worm-rna
  The C. elegans transcriptome at single cell resolution
  ☆11Updated 7 years ago
• keleslab / FreeHiC
  FreeHi-C pipeline for high fidelity Hi-C data simulation.
  ☆11Updated 3 years ago
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago