Alternatives and similar repositories for CIMLR

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

• txWang / BERMUDA
  BERMUDA (Batch Effect ReMoval Using Deep Autoencoders) is a novel transfer-learning-based method for batch correction in scRNA-seq data.
  ☆31Updated 6 years ago
• WangShuxiong / SoptSC
  SoptSC for single cell data analysis: unsupervised inference of clustering, cell lineage, pseudotime and cell-cell communication network …
  ☆22Updated 5 years ago
• nicococo / scRNA
  Python framework for single-cell RNA-seq clustering with special focus on transfer learning.
  ☆18Updated 6 years ago
• JinmiaoChenLab / Batch-effect-removal-benchmarking
  A benchmark of batch-effect correction methods for single-cell RNA sequencing data
  ☆79Updated 4 years ago
• eleozzr / desc
  Deep Embedding for Single-cell Clustering
  ☆89Updated last year
• jingxinfu / TIDEpy
  TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade…
  ☆38Updated 3 years ago
• Shamir-Lab / Multi-Omics-Cancer-Benchmark
  ☆26Updated 5 years ago
• favilaco / deconv_benchmark
  ☆59Updated 5 years ago
• carmonalab / TILPRED
  Tumor-Infiltrating CD8 Lymphocytes states prediction
  ☆14Updated 2 years ago
• reyes-m / sepsis_signature
  ☆12Updated 5 years ago
• CNRGH / crimmix
  ☆17Updated 6 years ago
• llniu / ALD-study
  ALD study data analysis
  ☆13Updated 2 years ago
• jianhuupenn / ItClust
  Iterative transfer learning with neural network improves clustering and cell type classification in single-cell RNA-seq analysis
  ☆54Updated 8 months ago
• dtsoucas / DWLS
  Gene expression deconvolution using dampened weighted least squares
  ☆33Updated 5 years ago
• jmzeng1314 / METABRIC
  ☆44Updated 6 years ago
• tiroshlab / Spatial_Glioma
  Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper
  ☆54Updated last year
• greenelab / pancancer
  Building classifiers using cancer transcriptomes across 33 different cancer-types
  ☆122Updated 6 years ago
• zhengtaoxiao / Single-Cell-Metabolic-Landscape
  Pipeline for characterizing metebolic heterogeneity from single-cell RNA-seq data
  ☆22Updated 4 years ago
• novonordisk-research / xOAML
  xOAML - NatComms
  ☆16Updated last year
• tanlabcode / CytoTalk
  A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…
  ☆44Updated 4 months ago
• sqjin / scAI
  An unsupervised approach for the integrative analysis of single-cell multi-omics data
  ☆31Updated 5 years ago
• meichendong / SCDC
  SCDC
  ☆46Updated 7 months ago
• ChengF-Lab / autoCell
  ☆16Updated 3 years ago
• cit-bioinfo / consensusMIBC
  Transcriptomic classifier for Muscle-Invasive Bladder Cancer
  ☆15Updated 3 years ago
• saezlab / FootprintMethods_on_scRNAseq
  Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data
  ☆28Updated 5 years ago
• LieberInstitute / spatialLIBD
  Code for the spatialLIBD R/Bioconductor package and shiny app
  ☆107Updated 3 weeks ago
• PeterZZQ / scMoMaT
  ☆21Updated last year
• bm2-lab / scLearn
  scLearn：Learning for single cell assignment
  ☆35Updated last year
• yycunc / SAFEclustering
  SAFE (Single-cell Aggregated clustering From Ensemble): Cluster ensemble for single-cell RNA-seq data
  ☆18Updated 4 years ago
• PaulingLiu / scibet
  A portable and fast single cell type identifier
  ☆63Updated 4 years ago