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BodenmillerGroup
/
imcRtools
An R package for handling and analysing imaging mass cytometry data
https://bodenmillergroup.github.io/imcRtools/
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Add functions to visualize neighborhoddPermTest results
#29
nilseling
closed
1 year ago
3
in `read_cpout` check that channels are not duplicated
#28
nilseling
closed
3 years ago
1
Rewrite neighborhood aggregation methods
#27
nilseling
closed
3 years ago
1
Implement `findBorderCells` function
#26
nilseling
closed
3 years ago
1
Add option to set a maximum distance to knn construction
#25
nilseling
closed
3 years ago
1
plotSpatial function
#24
SchulzDan
closed
3 years ago
5
Added graph utilities
#23
nilseling
closed
3 years ago
0
Add option to return proportions when summarizing neighbours
#22
nilseling
closed
3 years ago
1
first version of summarizeEnvironment function
#21
SchulzDan
closed
3 years ago
1
Reader corrections
#20
nilseling
closed
3 years ago
2
Rewrite `readSCEfromTXT` to not require metal names
#19
nilseling
closed
3 years ago
1
Add simple spatial graph builders
#18
nilseling
closed
3 years ago
3
Add read_cpout function
#17
nilseling
closed
3 years ago
2
Add things to ImcSegmentationPipeline
#16
nilseling
closed
2 years ago
2
Read steinbock
#15
nilseling
closed
3 years ago
4
Functions for interfacing with steinbock data
#14
jwindhager
closed
3 years ago
4
calculateSummary, plotCellCounts fun not found
#13
mohamadmilad
closed
3 years ago
4
Add function to compensate images
#12
nilseling
closed
2 years ago
1
Add function to compute minimum distance between each cell and a certain pattern
#11
nilseling
closed
2 years ago
1
Reforging of the package
#10
PierreBSC
closed
3 years ago
1
Add plotting functions for spatial coordinates and graphs
#9
nilseling
closed
3 years ago
2
Implement spatial compensation approach from CODEX paper
#8
nilseling
closed
3 years ago
1
Implement existing spatial analysis methods
#7
nilseling
closed
3 years ago
4
Reimplement Rphenograph
#6
nilseling
closed
3 years ago
1
Create diagnostic functions that visualize the distributions of counts
#5
nilseling
closed
4 years ago
0
Switch to SingleCellLoomExperiment
#4
nilseling
closed
3 years ago
2
Write LoomGraph to igraph object
#3
nilseling
closed
3 years ago
1
Rewrite neighbouRhood
#2
nilseling
closed
3 years ago
1
Create coordinates generic function
#1
nilseling
closed
3 years ago
1
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