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scimap
GitHub
Home
Install
Index
Functions
Functions
Pre Processing
Pre Processing
mcmicro_to_scimap
log1p
rescale
combat
Tools
Tools
phenotype_cells
cluster
umap
foldchange
spatial_distance
spatial_interaction
spatial_count
spatial_lda
spatial_expression
spatial_cluster
spatial_pscore
spatial_aggregate
spatial_similarity_search
Plotting Functions
Plotting Functions
image_viewer
addROI_image
gate_finder
heatmap
markerCorrelation
groupCorrelation
distPlot
densityPlot2D
cluster_plots
umap
foldchange
spatial_scatterPlot
spatial_distance
spatial_interaction
spatialInteractionNetwork
spatial_pscore
stacked_barplot
pie
voronoi
Helper Functions
Helper Functions
classify
rename
addROI_omero
dropFeatures
merge_adata_obs
animate
scimap_to_csv
Tutorials
Tutorials
Index
Setup
Setup
Install Scimap
Demo Data
Prepare Demo
Cell Phenotyping
Cell Phenotyping
Unsupervised clustering
Prior knowledge driven
Add ROIs
Explore cell types
Spatial Analysis
Spatial Analysis
Distance measurement
Interaction analysis
Proximity scores
Search patterns
Cellular Neighbourhoods
Cellular Neighbourhoods
Spatial LDA
Spatial Lag
Helper
Helper
Export data
Animate
Other helpers
Videos
Archive
Archive
Getting Started with Scimap
Cell-Phenotyping using Scimap
Cell-Phenotyping and adding ROIs
CellType Proportion Exploration
Simple Spatial Analysis
Animate with scimap
Contribute
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