Alternatives and similar repositories for ALLCools

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

• zhoujt1994 / scHiCluster
  ☆69Updated 2 weeks ago
• HYsxe / PRINT
  ☆37Updated last year
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated 10 months ago
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆51Updated this week
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆66Updated 4 months ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆22Updated last year
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆34Updated 5 months ago
• lhqing / cemba_data
  Mapping pipeline for snmC-seq based technologies.
  ☆20Updated 2 years ago
• wenweixiong / MARVEL
  ☆52Updated last year
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆31Updated 2 years ago
• mcvickerlab / varCA
  Use an ensemble of variant callers to call variants from ATAC-seq data
  ☆23Updated 6 months ago
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆35Updated 3 years ago
• anders-biostat / MethSCAn
  Python package with CLI for the analysis of single cell methylation data.
  ☆18Updated last year
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆29Updated last week
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated 11 months ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆25Updated 2 years ago
• rajewsky-lab / spacemake
  ☆48Updated last week
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆44Updated 2 years ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆58Updated 4 years ago
• UPSUTER / GEMLI
  ☆32Updated 10 months ago
• ma-compbio / Fast-Higashi
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, tensor decomposition
  ☆19Updated 2 years ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• neurorestore / DE-analysis
  ☆39Updated 4 years ago
• Teichlab / snp2cell
  cell type specific, trait-associated gene regulation
  ☆29Updated 8 months ago
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆27Updated 11 months ago
• QuKunLab / APEC
  Single cell epigenomic clustering based on accessibility pattern
  ☆23Updated 3 years ago
• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• lcmmichielsen / scHPL
  ☆37Updated 8 months ago
• DeplanckeLab / ChromatinHD
  High-definition modeling of chromatin + transcriptomics data
  ☆25Updated 7 months ago