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
  ☆26Updated last year
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆38Updated 2 months ago
• Nanostring-Biostats / InSituType
  An R package for performing cell typing in SMI and other single cell data
  ☆40Updated 4 months ago
• pachterlab / concordex
  Identification of spatial homogeneous regions
  ☆21Updated 8 months ago
• gerstung-lab / BaSISS
  Code for the "Spatial genomics maps the structure, nature and evolution of cancer clones" paper
  ☆27Updated 2 years ago
• nf-core / spatialxe
  ☆21Updated last week
• estellad / SpatialExperimentIO
  Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.
  ☆16Updated 2 weeks ago
• loosolab / scanpro
  A modular tool for proportion analysis in single-cell sequencing data
  ☆23Updated 2 weeks ago
• davemcg / scEiaD
  Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas
  ☆26Updated last year
• harbourlab / PieParty
  represent each cell in UMAP plots as a pie chart
  ☆16Updated 4 years ago
• DavisLaboratory / scDECAF
  Querying cellular states and programs by learning representations of gene sets
  ☆14Updated last week
• BodenmillerGroup / imctools
  Tools to handle IMC data
  ☆23Updated 3 years ago
• PMBio / MuDataSeurat
  .h5mu files interface for Seurat
  ☆31Updated last year
• wanglab-broad / CAST
  CAST package
  ☆40Updated 11 months ago
• AllenInstitute / scrattch
  Single cell RNA-seq analysis for transcriptomic type characterization
  ☆37Updated 3 weeks ago
• jbergenstrahle / STUtility
  ☆53Updated 2 years ago
• saeyslab / brainimmuneatlas
  Overview of the scripts used to analyse the brainimmuneatlas data
  ☆19Updated 4 years ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆38Updated 3 months ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆45Updated 3 years ago
• ambrosejcarr / seqc
  Single-Cell Sequencing Quality Control and Processing Software
  ☆30Updated 6 years ago
• tabdelaal / SIRV
  Spatial RNA velocity
  ☆10Updated last year
• Sanofi-Public / spatialone-pipeline
  Spatial One
  ☆28Updated 11 months ago
• caleblareau / maegatk
  Mitochondrial Alteration Enrichment and Genome Analysis Toolkit
  ☆22Updated last year
• jfnavarro / st_analysis
  A toolset for analysis and visualisation of Spatial Transcriptomics datasets.
  ☆18Updated 4 years ago
• SydneyBioX / scFeatures
  ☆14Updated 3 months ago
• quadbio / simspec
  Calculation of Reference/Cluster Similarity Spectrum (RSS/CSS)
  ☆35Updated last year
• satijalab / panhumanpy
  ☆20Updated this week
• LouisFaure / scFates
  a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.
  ☆61Updated last month
• linnarsson-lab / cytograph
  Algorithms for single-cell analysis
  ☆29Updated 4 years ago
• dyxmvp / Spatial_ATAC-seq
  ☆23Updated 2 years ago