Alternatives and similar repositories for scib-reproducibility:

Users that are interested in scib-reproducibility are comparing it to the libraries listed below

• Durenlab / LINGER
  ☆103Updated 4 months 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
  ☆94Updated 2 months ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆74Updated 4 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆68Updated 2 months ago
• YosefLab / scib-metrics
  Accelerated, Python-only, single-cell integration benchmarking metrics
  ☆58Updated last week
• multitalk / awesome-cell-cell-communication
  Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
  ☆46Updated 2 weeks ago
• wallet-maker / cytopus
  Single cell omics biology annotations
  ☆51Updated 2 weeks ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆69Updated last year
• YangLabHKUST / Portal
  Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets
  ☆30Updated last year
• cistrome / MIRA
  Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.
  ☆61Updated last year
• wukevin / babel
  Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
  ☆41Updated last year
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆71Updated 3 months ago
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆68Updated last month
• bowang-lab / DeepVelo
  ☆47Updated last year
• ZJUFanLab / SpaTalk
  Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
  ☆70Updated 3 months ago
• immunogenomics / LISI
  Methods to compute Local Inverse Simpson's Index (LISI)
  ☆61Updated 3 years ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆104Updated last month
• lanagarmire / Asgard
  ☆42Updated last year
• matanhofree / crc-immune-hubs
  Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…
  ☆39Updated 3 years ago
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆58Updated last year
• navinlabcode / CellTrek
  ☆118Updated 3 years ago
• SchubertLab / mvTCR
  ☆51Updated 6 months ago
• zcang / SpaOTsc
  ☆45Updated 2 years ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆126Updated 2 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆129Updated 2 years ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆104Updated 7 months ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆84Updated last year
• StatBiomed / SpatialDM
  Spatial direct messaging detected by bivariate Moran
  ☆26Updated this week
• Su-informatics-lab / DSTG
  Deconvoluting Spatial Transcriptomics Data through Graph-based Artificial Intelligence
  ☆38Updated 2 years ago