Alternatives and similar repositories for scHiCluster

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

• lhqing / ALLCools
  Toolkit for single-cell DNA methylation analysis.
  ☆42Updated 2 weeks ago
• ma-compbio / Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph
  ☆88Updated 10 months ago
• dylkot / pyWNN
  Weighted Nearest Neighbors Analysis implemented in Python (pyWNN)
  ☆18Updated 3 years ago
• HuMingLab / SnapHiC
  SnapHiC: Single Nucleus Analysis Pipeline for Hi-C Data
  ☆41Updated 2 years ago
• yal054 / epiformer
  ☆26Updated 4 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆64Updated last month
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated 7 months ago
• josephreplogle / guide_calling
  Tools for sgRNA calling in direct capture Perturb-seq data
  ☆37Updated 2 years ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆29Updated 2 years ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆77Updated last year
• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆19Updated last year
• SUwonglab / PECA
  PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data
  ☆44Updated last year
• HYsxe / PRINT
  ☆35Updated 11 months ago
• wangjuan001 / hicplus
  ☆12Updated 4 years ago
• CostaLab / scopen
  scOpen: single-cell open chromatin analysis via NMF modelling
  ☆26Updated 2 years ago
• dpeerlab / magic
  MAGIC - imputation and de-noising single-cell RNA seq data sets
  ☆27Updated 5 years ago
• JinLabBioinfo / DeepLoop
  DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data
  ☆32Updated 5 months ago
• hmatsu1226 / SCODE
  SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation
  ☆45Updated 5 years ago
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆27Updated this week
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆33Updated 2 months ago
• wanglabtongji / SCRIP
  SCRIP(Single Cell Regulatory network Inference using ChIP-seq) is a tool for evaluating the binding enrichment of specific TR at single-c…
  ☆20Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆122Updated this week
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆50Updated last year
• ma-compbio / scGHOST
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment
  ☆20Updated last year
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated last year
• dbrg77 / scATAC_snakemake
  Snakemake pipeline for plate scATAC-seq processing
  ☆26Updated last year
• liulab-dfci / lisa2
  ☆30Updated 2 years ago
• Papatheodorou-Group / BENGAL
  Nextflow pipeline for cross-species integration and assessment of single cell RNA-seq datasets
  ☆39Updated last month
• xmuhuanglab / eNet
  ☆12Updated 2 years ago
• mdozmorov / scHiC_notes
  Notes on single-cell Hi-C technologies, tools, and data
  ☆80Updated 10 months ago