Alternatives and similar repositories for ALLCools

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

• HYsxe / PRINT
  ☆37Updated last year
• zhoujt1994 / scHiCluster
  ☆69Updated 2 months ago
• wenweixiong / MARVEL
  ☆53Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆67Updated 7 months ago
• lhqing / cemba_data
  Mapping pipeline for snmC-seq based technologies.
  ☆20Updated 2 years ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated last year
• dpeerlab / Harmony
  Harmony framework for connecting scRNA-seq data from discrete time points
  ☆53Updated 2 months ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆33Updated 2 years ago
• UPSUTER / GEMLI
  ☆33Updated last year
• rajewsky-lab / spacemake
  ☆49Updated this week
• minoda-lab / universc
  UniverSC: a flexible cross-platform single-cell data processing pipeline
  ☆46Updated last year
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆24Updated 2 years ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆25Updated 3 years ago
• cbg-ethz / SCICoNE
  Single-cell copy number calling and event history reconstruction.
  ☆28Updated last year
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆35Updated 4 years ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• liulab-dfci / lisa2
  ☆33Updated 3 years ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆56Updated 8 months ago
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆34Updated 7 months ago
• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last year
• swaruplabUCI / ArchRtoSignac
  An R package performing object conversion from ArchRProject (ArchR) to Signac SeuratObject (Signac)
  ☆37Updated last year
• 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
• lcmmichielsen / scHPL
  ☆37Updated 2 weeks ago
• ysuzukilab / Cibersortx
  Repository for Cibersortx
  ☆62Updated 4 years ago
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆30Updated 3 weeks ago
• QuKunLab / APEC
  Single cell epigenomic clustering based on accessibility pattern
  ☆23Updated 3 years ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆34Updated last month
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆31Updated last week