Alternatives and similar repositories for single-cell-experiments:

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

• TaylorResearchLab / scedar
  Single-cell exploratory data analysis for RNA-Seq
  ☆40Updated 3 years ago
• theislab / scanpy-in-R
  A guide to using the Python scRNA-seq analysis package Scanpy from R
  ☆13Updated 4 years ago
• theislab / scAnalysisTutorial
  ☆10Updated 8 years ago
• gokceneraslan / pyannotables
  Python package for conversions between ENSEMBL IDs and gene names (annotables + pyensembl)
  ☆11Updated 2 years ago
• yanailab / moana
  Moana: Robust cell type classification of single-cell RNA-Seq data
  ☆24Updated 6 years ago
• JEFworks-Lab / MERmaid
  WebGL-based viewer for spatially-resolved transcriptomics data
  ☆26Updated 2 years ago
• czbiohub-sf / molecular-cross-validation
  Calibrate and compare methods for denoising single-cell RNA-seq data
  ☆2Updated 4 years ago
• normjam / benchmark
  Comparison of single-cell normalization methods using multiple datasets with ground-truth labels
  ☆19Updated 5 years ago
• BaderLab / AgingMouseBrainCCInx
  Predicted cell-cell interactions of the aging mouse brain
  ☆20Updated 5 years ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆24Updated last year
• klarman-cell-observatory / hdst
  ☆19Updated 5 years ago
• czbiohub-sf / scRFE
  Single-cell identity definition using random forest modelling and recursive feature elimination
  ☆12Updated 4 years ago
• pachterlab / kite
  kallisto index tag extractor
  ☆20Updated 5 years ago
• broadinstitute / scRNA-Seq
  ☆12Updated last year
• pachterlab / NYMP_2018
  ☆28Updated 5 years ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆54Updated this week
• ebi-gene-expression-group / scanpy-scripts
  Scripts for using scanpy
  ☆32Updated this week
• jbergenstrahle / STUtility
  ☆47Updated last year
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 3 years ago
• HumanCellAtlas / sctools
  Utilities for large scale distributed single cell data processing
  ☆23Updated 6 months ago
• lanagarmire / SSrGE
  ☆33Updated 5 years ago
• epigen / crop-seq
  Data analysis scripts for Datlinger et. al, 2017 (doi:10.1038/nmeth.4177)
  ☆30Updated 6 years ago
• forrest-lab / scMatch
  scMatch: a single-cell gene expression profile annotation tool using reference datasets
  ☆21Updated 4 years ago
• SpatialTranscriptomicsResearch / st_viewer
  A GUI tool for easy and smooth visualisation and analysis of Spatial Transcriptomics datasets
  ☆13Updated 3 years ago
• YosefLab / FastProject
  Dimensionality reduction for single cell RNA-seq data
  ☆35Updated 4 years ago
• MSingerLab / COMETSC
  COMET Single-Cell Marker Detection tool
  ☆31Updated 2 years ago
• scverse / anndata-tutorials
  Use cases for anndata.
  ☆13Updated 3 months ago
• theMILOlab / SPATA
  SPATA Package for spatial gene expression analysis
  ☆21Updated 2 years ago
• giannarelli-lab / Single-Cell-Immune-Profiling-of-Atherosclerotic-Plaques
  Immune Profiling of Atherosclerotic Plaques Identifies
  ☆9Updated last year
• iosonofabio / singlet
  Single cell RNA Seq data analysis with quantitative phenotypes
  ☆13Updated 4 years ago