Alternatives and similar repositories for mistyR

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

• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆81Updated 3 years ago
• ludvigla / semla
  ☆95Updated 2 months ago
• Nanostring-Biostats / CosMx-Analysis-Scratch-Space
  This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…
  ☆86Updated this week
• xleizi / easySCF
  ☆48Updated last month
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆67Updated last month
• pachterlab / voyager
  From geospatial to spatial -omics
  ☆99Updated this week
• msraredon / NICHES
  Niche Interactions and Cellular Heterogeneity in Extracellular Signaling
  ☆57Updated last week
• zktuong / ktplotspy
  Python library for plotting Cellphonedb results. Ported from ktplots R package.
  ☆56Updated this week
• omnideconv / omnideconv
  Unified access to several second-generation deconvolution methods
  ☆88Updated last month
• abelson-lab / scATOMIC
  Pan-Cancer Single Cell Classifier
  ☆81Updated last year
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆76Updated last year
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆81Updated 8 months ago
• JEFworks-Lab / CRAWDAD
  Cell-type Relationship Analysis Workflow Done Across Distances
  ☆37Updated 2 weeks ago
• wanglab-broad / CAST
  CAST package
  ☆41Updated last year
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆91Updated 6 months ago
• p-gueguen / Spatial_transcriptomics_tools
  List of Spatial Transcriptomics related Tools organized per category
  ☆95Updated last week
• scverse / anndataR
  AnnData interoperability in R
  ☆130Updated this week
• theislab / multimil
  Multimodal weakly supervised learning to identify disease-specific changes in single-cell atlases
  ☆35Updated 2 months ago
• theMILOlab / SPATA
  SPATA Package for spatial gene expression analysis
  ☆21Updated 3 years ago
• immunitastx / monkeybread
  Analyzing cellular niches in spatial transcriptomics data
  ☆33Updated last year
• saeyslab / FlowSOM
  Using self-organizing maps for visualization and interpretation of cytometry data
  ☆29Updated 2 weeks ago
• Teichlab / drug2cell
  Gene group activity utility functions for Scanpy
  ☆97Updated 11 months ago
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆76Updated 9 months ago
• SCCAF / sccaf
  Single-Cell Clustering Assessment Framework
  ☆107Updated 2 years ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆90Updated 3 months ago
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆79Updated 7 months ago
• guokai8 / scGSVA
  scGSVA: Perform GSVA for single cell RNA seq
  ☆67Updated last year
• maggiecrow / MetaNeighbor
  ☆48Updated 7 years ago
• JEFworks-Lab / veloviz
  RNA-velocity informed embeddings for visualizing cellular trajectories
  ☆44Updated 3 years ago
• BodenmillerGroup / imcRtools
  An R package for handling and analysing imaging mass cytometry data
  ☆28Updated last month