Alternatives and similar repositories for SEraster

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

• drighelli / SpatialExperiment
  ☆71Updated 4 months ago
• ludvigla / semla
  ☆94Updated 3 weeks ago
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆52Updated last year
• pekjoonwu / CELINA
  ☆16Updated 10 months ago
• pachterlab / voyager
  From geospatial to spatial -omics
  ☆97Updated 3 weeks ago
• Elisseeff-Lab / domino
  A software package for connecting cell level features in single cell RNA sequencing data with receptor ligand activity. Please be aware t…
  ☆17Updated 10 months ago
• pachterlab / SpatialFeatureExperiment
  Extension of SpatialExperiment with sf
  ☆55Updated last week
• saezlab / MOFAcellulaR
  R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)
  ☆11Updated 2 years ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆38Updated 4 months ago
• bdsc-tds / SPLIT
  Profile purification of single-cell spatial transcriptomics data
  ☆20Updated last month
• atakanekiz / CIPR-Package
  Cluster Identity Predictor (R package implementation)
  ☆20Updated 3 years ago
• korsunskylab / rcna
  R implementation of the Reshef and Rumker CNA method (https://github.com/immunogenomics/cna)
  ☆15Updated 2 years ago
• zdebruine / singlet
  Single-cell analysis with non-negative matrix factorization
  ☆45Updated 2 months ago
• ZJUFanLab / CellTalkDB
  A manually curated database of literature-supported ligand-receptor interactions in human and mouse
  ☆30Updated last year
• omnideconv / spacedeconv
  A unified interface to spatial transcriptomics deconvolution tools
  ☆42Updated this week
• zktuong / ktplotspy
  Python library for plotting Cellphonedb results. Ported from ktplots R package.
  ☆55Updated this week
• cbib / Seurat-Integrate
  R package expanding integrative analysis capabilities of Seurat by providing seamless access to popular integration methods and to an int…
  ☆31Updated last month
• greenelab / miQC
  Flexible, probablistic metrics for quality control of scRNA-seq data
  ☆21Updated 2 years ago
• Oshlack / speckle
  R package for specialised analysis of single cell data
  ☆39Updated 2 years ago
• estellad / SpatialExperimentIO
  Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.
  ☆16Updated 2 weeks ago
• rikenbit / scTensor
  R package for detection of cell-cell interaction using Non-negative Tensor Decomposition
  ☆34Updated 3 months ago
• carmonalab / ProjecTILs_CaseStudies
  A repository of case studies using ProjecTILs
  ☆15Updated last year
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆39Updated 3 years ago
• SCA-IRCM / SingleCellSignalR
  R package for Bioconductor submission
  ☆37Updated 2 years ago
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆56Updated 5 months ago
• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆80Updated 3 years ago
• ImmuneDynamics / Spectre
  A computational toolkit in R for the integration, exploration, and analysis of high-dimensional single-cell cytometry and imaging data.
  ☆64Updated 3 weeks ago
• kaishumason / NicheDE
  NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.
  ☆20Updated 3 months ago
• milescsmith / ReductionWrappers
  R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)
  ☆36Updated 9 months ago
• jlaffy / infercna
  Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data
  ☆43Updated last year