Alternatives and similar repositories for batchbench

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

• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• Hoohm / CITE-seq-Count
  A tool that allows to get UMI counts from a single cell protein assay
  ☆85Updated 5 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆97Updated 4 years ago
• Single-Cell-Genomics-Group-CNAG-CRG / Tumor-Immune-Cell-Atlas
  Code repository for the Tumor Immune Cell Atlas (TICA) project
  ☆64Updated 3 years ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆69Updated 5 years ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆90Updated last month
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year
• GreenleafLab / MPAL-Single-Cell-2019
  Publication Page for MPAL Paper 2019
  ☆83Updated 5 years ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 2 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆68Updated 4 years ago
• KlugerLab / DAseq
  ☆41Updated 4 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆77Updated 8 months ago
• faryabib / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆45Updated 4 years ago
• cssmillie / ulcerative_colitis
  ☆63Updated 5 years ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆87Updated 4 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆110Updated 2 years ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆105Updated last year
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆75Updated 2 years ago
• saezlab / progeny
  R package for Pathway RespOnsive GENe activity inference
  ☆108Updated 2 years ago
• edsgard / trendsceek
  Identify genes with spatial expression trends in single-cell gene expression data
  ☆50Updated 7 years ago
• lhe17 / nebula
  ☆42Updated 3 months ago
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆104Updated last year
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆77Updated last year
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆72Updated last year
• rpolicastro / scProportionTest
  ☆73Updated 2 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆124Updated 2 months ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆64Updated last year
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆45Updated 5 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆111Updated 10 months ago
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆85Updated last year