Alternatives and similar repositories for scaden

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

• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆102Updated last year
• LungCellAtlas / HLCA_reproducibility
  This repository contains all code used for the Human Lung Cell Atlas project.
  ☆49Updated last year
• cellgeni / batchbench
  ☆46Updated 3 years ago
• ysuzukilab / Cibersortx
  Repository for Cibersortx
  ☆60Updated 4 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆74Updated 5 months ago
• favilaco / deconv_benchmark
  ☆58Updated 4 years ago
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆39Updated 3 years ago
• quadbio / scMultiome_analysis_vignette
  Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis
  ☆58Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆71Updated 4 months ago
• JianYang-Lab / MeDuSA
  MeDuSA is a fine-resolution cellular deconvolution method that leverages scRNA-seq data as a reference to estimate cell-state abundance i…
  ☆43Updated 4 months ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆62Updated 3 years ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆124Updated last year
• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆92Updated 11 months ago
• BostonGene / Kassandra
  Bostongene cell deconvolution algorithm from RNAseq
  ☆55Updated last year
• theislab / anndata2ri
  Convert between AnnData and SingleCellExperiment
  ☆137Updated this week
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆82Updated last month
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆137Updated last year
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆118Updated 10 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆129Updated 4 months ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆82Updated last month
• ggjlab / HCL
  Tools used in Human Cell Landscape(HCL)
  ☆54Updated 4 years ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆102Updated 9 months ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆78Updated last year
• rnakato / ShortCake
  A docker image for single-cell analysis
  ☆88Updated 4 months ago
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆62Updated 3 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆105Updated 2 years ago
• theislab / spatial_scog_workshop_2022
  Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022
  ☆53Updated 3 years ago
• icbi-lab / luca
  Single-cell Lung Cancer Atlas with 1.2M cells
  ☆63Updated 5 months ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year