SCCAF / sccaf

Related projects ⓘ

Alternatives and complementary repositories for sccaf

• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆59Updated 6 months ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆66Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆60Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆56Updated 4 months ago
• velocyto-team / velocyto-notebooks
  ☆55Updated 6 years 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 2 years ago
• LuckyMD / Code_snippets
  A repo with random short code snippets
  ☆40Updated 5 years ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆85Updated last week
• ShobiStassen / VIA
  trajectory inference
  ☆86Updated last month
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆104Updated 9 months ago
• aertslab / pycisTopic
  pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.
  ☆58Updated this week
• AllonKleinLab / SPRING_dev
  ☆66Updated 6 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆66Updated 5 months ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 4 months ago
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆129Updated this week
• cellgeni / batchbench
  ☆47Updated 2 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆96Updated last month
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆65Updated 4 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆89Updated 3 years ago
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆75Updated last week
• Coolgenome / iTALK
  ☆57Updated 5 years ago
• rajewsky-lab / novosparc
  ☆126Updated 11 months ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆60Updated 11 months ago
• calico / solo
  software to detect doublets
  ☆85Updated 3 months ago
• AllonMKlein / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆85Updated 5 years ago
• scverse / scanpy_usage
  Scanpy use cases.
  ☆77Updated 4 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆99Updated last year
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆38Updated 3 years ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆48Updated last month
• GreenleafLab / MPAL-Single-Cell-2019
  Publication Page for MPAL Paper 2019
  ☆76Updated 4 years ago