Alternatives and similar repositories for MoleculeExperiment

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

• theislab / troutpy
  Package for the analysis of Transcripts outside segmented cells in ST data
  ☆21Updated this week
• estellad / SpatialExperimentIO
  Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.
  ☆16Updated 2 months ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆33Updated last year
• const-ae / pyLemur
  A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.
  ☆27Updated 11 months ago
• saeyslab / spotless-benchmark
  A repository for benchmarking spatial deconvolution and mapping tools
  ☆35Updated 7 months ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆38Updated 3 weeks ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• ventolab / cellphonedbviz
  Interactive visualisation of CellphoneDB results
  ☆11Updated 10 months ago
• Teichlab / sctk
  ☆43Updated last month
• wanglab-broad / CAST
  CAST package
  ☆41Updated last year
• PMBio / SpatialDE
  Test genes for Spatial Variation
  ☆15Updated 11 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 2 months ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆44Updated 6 months ago
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆63Updated this week
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆35Updated 2 months ago
• korsunskylab / tessera
  ☆16Updated 3 months ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆37Updated last month
• damienArnol / svca
  ☆13Updated 6 years ago
• almaan / eggplant
  ☆22Updated 3 years ago
• vitessce / vitessceR
  R API and htmlwidget for Vitessce
  ☆44Updated 4 months ago
• broadinstitute / celldega
  Spatial omics analysis and visualization library
  ☆21Updated this week
• bioinfoDZ / scDAPP
  A end-to-end scRNA-seq analysis pipeline for cross-group comparison
  ☆18Updated 6 months ago
• saezlab / MOFAcell
  Code used for muti cellular factor analysis
  ☆14Updated 2 years ago
• HCA-integration / scAtlasTb
  Pipeline framework for iteratively and reproducibly building and evaluating single cell atlases
  ☆45Updated this week
• YosefLab / mrvi_archive
  Multi-resolution Variational Inference
  ☆22Updated this week
• ajaynadig / TRADEtools
  ☆34Updated 9 months ago
• Novartis / scar
  scAR (single-cell Ambient Remover) is a deep learning model for removal of the ambient signals in droplet-based single cell omics
  ☆56Updated last year
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated this week
• limin321 / stmut
  Visualizing Somatic Alterations of 10X Spatial Transcriptomics Data
  ☆13Updated last year
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated 2 years ago