Alternatives and similar repositories for MRtree

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

• BrainStOrmics / Spaco
  Spatially constrained color profiling for visualizing single-cell resolution spatial data
  ☆25Updated last year
• 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
  ☆45Updated 7 months ago
• loosolab / scanpro
  A modular tool for proportion analysis in single-cell sequencing data
  ☆24Updated 3 months ago
• estellad / SpatialExperimentIO
  Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.
  ☆16Updated 3 months ago
• gerstung-lab / BaSISS
  Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
  ☆27Updated 3 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆38Updated last month
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆26Updated last year
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆38Updated last month
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆64Updated 3 weeks ago
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 4 years ago
• Teichlab / sctk
  ☆44Updated last month
• nf-core / spatialxe
  ☆24Updated last month
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• AllenInstitute / scrattch.bigcat
  iterative clustering pipeline of big single cell datasets.
  ☆35Updated 3 months ago
• AllenInstitute / scrattch
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆38Updated 3 months ago
• BodenmillerGroup / imctools
  Tools to handle IMC data
  ☆24Updated 3 years ago
• theislab / troutpy
  Package for the analysis of Transcripts outside segmented cells in ST data
  ☆23Updated last week
• quadbio / VoxHunt
  VoxHunt: Resolving human brain organoid heterogeneity through single-cell genomic comparison to spatial brain maps
  ☆47Updated last year
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆32Updated 2 years ago
• saeyslab / brainimmuneatlas
  Overview of the scripts used to analyse the brainimmuneatlas data
  ☆19Updated 5 years ago
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• theislab / spapros
  Python package for Probe set selection for targeted spatial transcriptomics.
  ☆47Updated last month
• bendemeo / shannonca
  Information-based dimensionality reduction
  ☆29Updated last year
• MacoskoLab / slideseq-tools
  Tools for analyzing Slide-seq data
  ☆31Updated 2 years ago
• DavisLaboratory / scDECAF
  Querying cellular states and programs by learning representations of gene sets
  ☆14Updated last month
• wanglab-broad / CAST
  CAST package
  ☆41Updated last year
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆24Updated last year
• JinmiaoChenLab / ezSingleCell2
  ☆57Updated last year