Alternatives and similar repositories for SCALEX:

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

• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆41Updated last year
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆110Updated 5 months ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆60Updated 2 years ago
• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆102Updated last year
• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆91Updated 8 months ago
• Durenlab / LINGER
  ☆100Updated 3 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆104Updated 6 months ago
• SydneyBioX / scJoint
  ☆59Updated last year
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆68Updated last year
• theislab / scgen-reproducibility
  ☆24Updated 4 years ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆110Updated last year
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆93Updated last month
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆102Updated 3 weeks ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆64Updated 2 months ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆71Updated 2 months ago
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 11 months ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆71Updated 3 months ago
• ZJUFanLab / SpaTalk
  Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
  ☆69Updated 3 months ago
• lanagarmire / Asgard
  ☆42Updated last year
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆115Updated 7 months ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆74Updated last year
• cliffren / PENCIL
  PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.
  ☆28Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆124Updated last month
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆67Updated 2 years ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆129Updated 2 years ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated last month
• navinlabcode / CellTrek
  ☆116Updated 3 years ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆40Updated 3 years ago
• YosefLab / popV
  ☆72Updated this week