Alternatives and similar repositories for SPIAT

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

• DavisLaboratory / vissE
  An R/Bioconductor package to identify higher-order molecular phenotypes
  ☆16Updated last year
• jgamache014 / snRNA-seq-workflow
  Human brain, >200,000 nuclei
  ☆24Updated 4 years ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆25Updated last year
• pachterlab / concordexR
  Compute the neighborhood consolidation matrix and identify SHRs
  ☆13Updated last week
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• greenelab / miQC
  Flexible, probablistic metrics for quality control of scRNA-seq data
  ☆20Updated 2 years ago
• CamaraLab / STvEA
  Spatially-resolved Transcriptomics via Epitope Anchoring
  ☆19Updated last year
• DavisLaboratory / scDECAF
  Querying cellular states and programs by learning representations of gene sets
  ☆13Updated 11 months ago
• CostaLab / MOJITOO
  MOJITOO: a fast and universal method for integration of multimodal single cell data
  ☆10Updated 8 months ago
• satijalab / azimuth-references
  ☆23Updated last month
• omnideconv / spacedeconv
  A unified interface to spatial transcriptomics deconvolution tools
  ☆41Updated last month
• crazyhottommy / scCustomize
  Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
  ☆16Updated 3 years ago
• drewvoigt10 / cellcuratoR
  sharing interactive single cell gene expression visualizations from Seurat
  ☆10Updated 2 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆36Updated last month
• kenichi-shimada / depmap-analysis
  This repostory contains codes for Shimada et al., "A tool for browsing the Cancer Dependency Map reveals functional connections between g…
  ☆13Updated 3 years ago
• PoolLab / generecovery
  ☆29Updated 2 years ago
• dbdimitrov / BingleSeq
  BingleSeq - A user-friendly R package for Bulk and Single-cell RNA-Seq data analyses
  ☆21Updated 3 years ago
• liuhong-jia / scAnno
  ☆24Updated 3 weeks ago
• mainciburu / WAT3R
  Workflow for the Association of T-cell receptors from 3' single-cell RNA-seq (WAT3R)
  ☆21Updated 2 years ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆32Updated 2 weeks ago
• adoostparast / CellR
  CellR: single-cell RNA-Seq guided deconvolution of cellular composition from bulk-tissue RNA-Seq
  ☆18Updated 4 years ago
• Jiaxin-Fan / MuSiC2
  cell type deconvolution for multi-condition bulk RNA-seq data
  ☆26Updated 3 years ago
• ati-lz / HCA_Benchmarking
  This repository contains HCA Benchmarking codes
  ☆26Updated 5 years ago
• pachterlab / GFCP_2022
  RNA velocity validation
  ☆22Updated 3 years ago
• Sarah145 / CCPlotR
  An R package for visualising cell-cell interactions
  ☆44Updated 10 months ago
• netbiolab / scHumanNet
  Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3
  ☆43Updated 3 weeks ago
• wwylab / DeMixT
  ☆36Updated 11 months ago
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆33Updated last month
• Sun-lab / ideas
  Individual level Differential Expression Analysis for Single cells
  ☆24Updated 2 years ago
• TransBioInfoLab / TNBC_analysis
  Code to reproduce TNBC analysis and figures
  ☆24Updated 3 years ago