Alternatives and similar repositories for scE2G

Users that are interested in scE2G are comparing it to the libraries listed below

• jmschrei / dragonnfruit
  A method for analyzing scATAC-seq experiments.
  ☆30Updated 2 months ago
• cantinilab / Circe
  Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).
  ☆21Updated 3 weeks ago
• zakieh-tayyebi / CellSpace
  Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace
  ☆40Updated 4 months ago
• HYsxe / PRINT
  ☆35Updated 8 months ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆68Updated last month
• snehamitra / SCARlink
  ☆51Updated 8 months ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆43Updated 10 months ago
• douglasyao / FR-Perturb
  Factorize-Recover for Perturb-seq analysis (FR-Perturb)
  ☆20Updated 5 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 3 weeks ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated last year
• 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 2 years ago
• potulabe / symphonypy
  Port of symphony algorithm of single-cell reference atlas mapping to Python
  ☆28Updated 5 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆42Updated last year
• morris-lab / BiddyetalWorkflow
  This repository contains our CellTag workflow, as deployed in our 2018 Biddy et al., Nature paper.
  ☆32Updated 10 months ago
• buenrostrolab / PRINT
  ☆14Updated last week
• cantinilab / HuMMuS
  Molecular interactions inference from single-cell multi-omics data
  ☆24Updated this week
• EraslanBas / PerturbDecode
  An end-to-end computational pipeline for large Perturb-seq screens
  ☆13Updated 3 weeks ago
• KlugerLab / DAseq
  ☆40Updated 4 years ago
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated last month
• mcgilldinglab / scSemiProfiler
  A computational method scSemiProfiler that provides affordable single-cell data for large-scale disease cohorts using deep generative mod…
  ☆23Updated last month
• UPSUTER / GEMLI
  ☆31Updated 3 months ago
• mcgilldinglab / UNAGI
  Unagi: Deep Generative Model for Deciphering Cellular Dynamics and In-Silico Drug Discovery in Complex Diseases.
  ☆15Updated last month
• yal054 / epiformer
  ☆26Updated last month
• czbiohub-sf / tabula-sapiens
  Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens
  ☆41Updated last year
• noamteyssier / adpbulk
  pseudobulking on an AnnData object
  ☆30Updated 2 months ago
• beyondpie / CEMBA_wmb_snATAC
  Whole mouse brain snATAC seq analysis
  ☆25Updated 3 weeks ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆29Updated last year
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆78Updated last year
• josephreplogle / guide_calling
  Tools for sgRNA calling in direct capture Perturb-seq data
  ☆33Updated last year
• aertslab / CREsted
  CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…
  ☆39Updated 2 weeks ago