Alternatives and similar repositories for SCALEX:

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

• jsxlei / SCALE
  Single-cell ATAC-seq analysis via Latent feature Extraction
  ☆102Updated 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
  ☆59Updated 2 years ago
• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆91Updated 8 months ago
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆40Updated last year
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆66Updated last year
• Durenlab / LINGER
  ☆96Updated 2 months ago
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆61Updated 10 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆103Updated 5 months ago
• bowang-lab / DeepVelo
  ☆47Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆63Updated last month
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated 11 months ago
• multitalk / awesome-cell-cell-communication
  Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
  ☆39Updated 2 weeks ago
• ma-compbio / SpiceMix
  spatial transcriptome, single cell
  ☆67Updated 2 years ago
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• SydneyBioX / scJoint
  ☆57Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆125Updated last month
• kunwang34 / PhyloVelo
  PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
  ☆43Updated last year
• dpeerlab / magic
  MAGIC - imputation and de-noising single-cell RNA seq data sets
  ☆27Updated 5 years ago
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆74Updated last year
• SONGDONGYUAN1994 / scDesign3
  scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics
  ☆90Updated 3 weeks ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆102Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆69Updated 2 months ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆56Updated 11 months ago
• pinellolab / dictys
  Context specific and dynamic gene regulatory network reconstruction and analysis
  ☆114Updated 6 months ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆50Updated 2 weeks ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆40Updated 3 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
• bm2-lab / scMVP
  ☆29Updated last month
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆81Updated last year