JEFworks-Lab / STdeconvolve

Related projects ⓘ

Alternatives and complementary repositories for STdeconvolve

• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆123Updated this week
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆151Updated last week
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆115Updated 6 months ago
• icbi-lab / infercnvpy
  Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
  ☆137Updated this week
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆66Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆150Updated last year
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆96Updated 2 weeks ago
• timoast / sinto
  Tools for single-cell data processing
  ☆118Updated 5 months ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆170Updated 2 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆133Updated 8 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆147Updated 4 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆100Updated 2 months ago
• swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
  Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
  ☆85Updated 3 years ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆94Updated 10 months ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆102Updated last year
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆72Updated last year
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆115Updated 3 months ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 4 months ago
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆131Updated last year
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆137Updated 2 weeks ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆75Updated 5 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆100Updated last year
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆84Updated this week
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆72Updated 4 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆86Updated last week
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆154Updated 9 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆110Updated 7 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆96Updated 2 months ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆134Updated 2 years ago
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆184Updated 7 months ago