Alternatives and similar repositories for SCeptre

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

• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆65Updated 3 weeks ago
• SchubertLab / mvTCR
  ☆54Updated 10 months ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆89Updated 9 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 5 months ago
• zhouzilu / cTPnet
  cTPnet Package
  ☆25Updated 3 years ago
• Matrisome / MatrisomeAnalyzeR
  An R package for ECM molecule annotation, classification, and analysis
  ☆10Updated last year
• noamteyssier / adpbulk
  pseudobulking on an AnnData object
  ☆34Updated 6 months ago
• lanagarmire / Asgard
  ☆44Updated last year
• shuxiaoc / maxfuse
  ☆55Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆74Updated 7 months ago
• settylab / Mellon
  Non-parametric density inference for single-cell analysis.
  ☆72Updated 4 months ago
• Novartis / cellxgene-gateway
  Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cel…
  ☆66Updated last year
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆68Updated 8 months ago
• scverse / scvi-tutorials
  Notebooks used in scvi-tools tutorials
  ☆55Updated this week
• DendrouLab / panpipes
  Multi-modal single cell analysis pipelines
  ☆58Updated 3 weeks ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆141Updated 2 years ago
• YosefLab / popV
  ☆81Updated this week
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆95Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆77Updated 8 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
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆34Updated last month
• ZJUFanLab / SpaTalk
  Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
  ☆72Updated 8 months ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆113Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆122Updated 2 weeks ago
• prabhakarlab / Banksy_py
  ☆62Updated last month
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆43Updated 3 weeks ago
• welch-lab / pyliger
  Python package for integrating and analyzing multiple single-cell datasets (A Python version of LIGER)
  ☆30Updated 4 months ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆135Updated this week
• vitkl / orthologsBioMART
  One-liner for mapping orthologous genes in both R and python using ENSEMBL BioMART
  ☆23Updated 3 years ago
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆64Updated 2 months ago