Alternatives and similar repositories for Batch-effect-removal-benchmarking

Users that are interested in Batch-effect-removal-benchmarking are comparing it to the libraries listed below

• favilaco / deconv_benchmark
  ☆58Updated 5 years ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆70Updated 4 years ago
• mohuangx / SAVER
  Single-cell RNA-seq Gene Expression Recovery
  ☆111Updated 11 months ago
• gao-lab / Cell_BLAST
  A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
  ☆94Updated last year
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆139Updated 2 years ago
• theislab / scib-reproducibility
  Additional code and analysis from the single-cell integration benchmarking project
  ☆69Updated 2 years ago
• Durenlab / LINGER
  ☆119Updated 5 months ago
• LocasaleLab / Single-Cell-Metabolic-Landscape
  Pipeline for exploring metebolic heterogeneity at single-cell resolution
  ☆74Updated 5 years ago
• livnatje / DIALOGUE
  DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…
  ☆115Updated last year
• cailab-tamu / scTenifoldKnk
  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.
  ☆87Updated 2 months ago
• navinlabcode / CellTrek
  ☆126Updated 3 years ago
• rajewsky-lab / novosparc
  ☆131Updated 2 years ago
• cellgeni / batchbench
  ☆46Updated 3 years ago
• wguo-research / scCancer
  A package for automated processing of single cell RNA-seq data in cancer
  ☆114Updated 2 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆153Updated last year
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆144Updated 2 years ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆135Updated 2 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆173Updated last year
• BlishLab / scriabin
  Analysis of cell-cell communication at single-cell resolution
  ☆105Updated last year
• KlugerLab / ALRA
  Imputation method for scRNA-seq based on low-rank approximation
  ☆77Updated last year
• ZJUFanLab / bulk2space
  a spatial deconvolution method based on deep learning frameworks, which converts bulk transcriptomes into spatially resolved single-cell …
  ☆126Updated 2 years ago
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆142Updated last year
• KevinMenden / scaden
  Deep Learning based cell composition analysis with Scaden.
  ☆84Updated last year
• Vivianstats / scImpute
  Accurate and robust imputation of scRNA-seq data
  ☆97Updated 6 years ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆169Updated 7 months ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆106Updated 2 years ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆99Updated 2 years ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆93Updated last month
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆79Updated 9 months ago