Alternatives and similar repositories for single-cell-curation:

Users that are interested in single-cell-curation are comparing it to the libraries listed below

• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆64Updated last month
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆80Updated 5 months ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆110Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆69Updated 2 months ago
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆52Updated 7 months ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆99Updated last year
• flatironinstitute / inferelator
  Task-based gene regulatory network inference using single-cell or bulk gene expression data conditioned on a prior network.
  ☆48Updated 9 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 11 months ago
• theislab / AutoGeneS
  ☆59Updated 3 years ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated last month
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆61Updated last year
• lilab-bcb / harmony-pytorch
  ☆51Updated last week
• chanzuckerberg / cellxgene-census
  CZ CELLxGENE Discover Census
  ☆98Updated last week
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆71Updated 3 weeks ago
• czbiohub-sf / tabula-sapiens
  Single Cell Transcriptomics of 25 Human Organs to Create a Tabula Sapiens
  ☆41Updated last year
• bioFAM / mofapy2
  Multi-omics factor analysis v2
  ☆44Updated 5 months ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆71Updated 3 months ago
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated last year
• lcmmichielsen / scHPL
  ☆35Updated last month
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆59Updated 10 months ago
• morris-lab / Capybara
  Capybara: A computational tool to measure cell identity and fate transitions
  ☆58Updated 2 years ago
• aertslab / arboreto
  A scalable python-based framework for gene regulatory network inference using tree-based ensemble regressors.
  ☆56Updated last year
• cellatlas / human
  ☆42Updated 5 months ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆115Updated 7 months ago
• jzhoulab / quasildr
  Quasilinear data representations for single-cell omics data analysis
  ☆42Updated last year
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆58Updated last week
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆66Updated this week
• interactivereport / cellxgene_VIP
  Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…
  ☆146Updated 2 weeks ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆73Updated 11 months ago
• cailab-tamu / scTenifoldKnk
  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.
  ☆44Updated 3 months ago