Alternatives and similar repositories for scATAC-reprog

Users that are interested in scATAC-reprog are comparing it to the libraries listed below

• mvinyard / ArchR-h5ad
  Parse ArchR arrow files to anndata h5ad
  ☆15Updated last year
• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆34Updated 3 months ago
• saezlab / greta
  Benchmark of GRNs using the GRETA pipeline
  ☆28Updated this week
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆43Updated 2 years ago
• PeterZZQ / CellPath
  ☆20Updated 3 years ago
• DeplanckeLab / ChromatinHD
  High-definition modeling of chromatin + transcriptomics data
  ☆25Updated 5 months ago
• yal054 / epiformer
  ☆26Updated 5 months ago
• ratschlab / scim
  Code for Universal Single-Cell Matching with Unpaired Feature Sets
  ☆21Updated 4 years ago
• zhanglhbioinfor / DIRECT-NET
  ☆12Updated 2 years ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆41Updated 8 months ago
• doraadong / TraSig
  Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data
  ☆25Updated 2 years ago
• pinellolab / pychromVAR
  A python package for chromVAR
  ☆30Updated 2 years ago
• caleblareau / mtscATACpaper_reproducibility
  Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020
  ☆17Updated 2 years ago
• wycwycpku / RSCORE
  ☆26Updated 4 years ago
• mukamel-lab / SingleCellFusion
  SingleCellFusion--a tool to integrate single-cell transcriptome and epigenome data
  ☆12Updated 3 years ago
• HYsxe / PRINT
  ☆36Updated last year
• brianhie / trajectorama
  Multi-study integration of cellular trajectories
  ☆19Updated 5 years ago
• GreenleafLab / brainchromatin
  Code used to analyze single cell RNA and ATAC sequencing in developing human brain
  ☆33Updated 3 years ago
• rs239 / velorama
  Gene regulatory network inference for RNA velocity and pseudotime data
  ☆27Updated 3 weeks ago
• theislab / mubind
  Learning motif contributions to cell transitions using sequence features and graphs.
  ☆28Updated last year
• AllonKleinLab / paper-data
  ☆20Updated this week
• gitter-lab / SINGE
  Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data
  ☆11Updated last year
• soedinglab / prosstt
  PRObabilistic Simulations of ScRNA-seq Tree-like Topologies
  ☆26Updated last year
• jcao89757 / TESSA
  Mapping the Functional Landscape of TCR Repertoire
  ☆34Updated 3 years ago
• broadinstitute / gtex-single-nucleus-reference
  Code repository for the snRNA-seq cross-tissue atlas project
  ☆21Updated 3 years ago
• immunogenomics / cna
  Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…
  ☆55Updated 4 months ago
• karbalayghareh / ENCODE-E2G
  Python package to predict enhancer-gene interactions supervised on CRISPRi data
  ☆13Updated last year
• zhoujt1994 / scHiCluster
  ☆68Updated 4 months ago
• rargelaguet / mouse_organogenesis_10x_multiome_publication
  Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""
  ☆40Updated 3 years ago
• forrest-lab / NATMI
  NATMI: Network Analysis Toolkit for the Multicellular Interactions
  ☆35Updated 4 years ago