Files in Nanostring-Biostats/SpatialOmicsOverlay
Spatial Overlay for Omic Data from Nanostring GeoMx Data
.github/workflows/main.yml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/SpatialOverlay-class.R
R/SpatialPosition-class.R
R/addImage.R
R/addPlottingFactor.R
R/coordinateGeneration.R
R/imageManipulation.R
R/omeExtraction.R
R/plottingBasics.R
R/readSpatialOverlay.R
R/removeSamples.R
R/utils.R
R/xmlParsing.R
README.md
inst/extdata/muBrainSubset_SpatialOverlay.zip
inst/extdata/muBrain_GxT.zip
inst/extdata/muBrain_LabWorksheet.txt
inst/extdata/muBrain_subset_LabWorksheet.txt
inst/extdata/testData/kidney.zip
inst/extdata/testData/test_LabWorksheet.txt
longtests/testthat.R
longtests/testthat/_snaps/addImage/add-image-file.svg
longtests/testthat/_snaps/addImage/add-ometiff-res-6.svg
longtests/testthat/_snaps/addImage/add-ometiff-res-8.svg
longtests/testthat/_snaps/imageManipulation/cropsamples-all-rois.svg
longtests/testthat/_snaps/imageManipulation/cropsamples-sampsonly.svg
longtests/testthat/_snaps/imageManipulation/croptissue.svg
longtests/testthat/_snaps/imageManipulation/croptissue4chan.svg
longtests/testthat/_snaps/imageManipulation/flipx.svg
longtests/testthat/_snaps/imageManipulation/flipy.svg
longtests/testthat/_snaps/imageManipulation/imagecoloring.svg
longtests/testthat/_snaps/imageManipulation/recolor.svg
longtests/testthat/_snaps/plotting/fluorlegend-1-row.svg
longtests/testthat/_snaps/plotting/fluorlegend-2-row.svg
longtests/testthat/_snaps/plotting/fluorlegend-4-row.svg
longtests/testthat/_snaps/plotting/image-scalebar.svg
longtests/testthat/_snaps/plotting/lowres-fluorlegend.svg
longtests/testthat/_snaps/plotting/lowres-no-scalebar-no-legend.svg
longtests/testthat/_snaps/plotting/lowres-no-scalebar.svg
longtests/testthat/_snaps/plotting/no-image-scalebar.svg
longtests/testthat/_snaps/plotting/scale-bar-check-1.svg
longtests/testthat/_snaps/plotting/scale-bar-check-2.svg
longtests/testthat/_snaps/plotting/scale-bar-check-3.svg
longtests/testthat/test_SpatialOverlay.R
longtests/testthat/test_SpatialPosition.R
longtests/testthat/test_addImage.R
longtests/testthat/test_addPlottingFactor.R
longtests/testthat/test_coordinateGeneration.R
longtests/testthat/test_extraction.R
longtests/testthat/test_imageManipulation.R
longtests/testthat/test_parsing.R
longtests/testthat/test_plotting.R
longtests/testthat/test_readSpatialOverlay.R
longtests/testthat/test_removeSamples.R
longtests/testthat/test_utils.R
man/SpatialOverlay-class.Rd
man/SpatialPosition-class.Rd
man/add4ChannelImage.Rd
man/addImageFile.Rd
man/addImageOmeTiff.Rd
man/addPlottingFactor.Rd
man/annotMatching.Rd
man/bookendStr.Rd
man/changeColoringIntensity.Rd
man/changeImageColoring.Rd
man/checkValidRes.Rd
man/createCoordFile.Rd
man/createMask.Rd
man/cropSamples.Rd
man/cropTissue.Rd
man/downloadMouseBrainImage.Rd
man/flipX.Rd
man/flipY.Rd
man/fluorLegend.Rd
man/moveCoords.Rd
man/parseOverlayAttrs.Rd
man/parseScanMetadata.Rd
man/plotSpatialOverlay.Rd
man/readLabWorksheet.Rd
man/readSpatialOverlay.Rd
man/recolor.Rd
man/removeSample.Rd
man/xmlExtraction.Rd
reqs.md
specs.md
tests/testthat.R
tests/testthat/test_all.R
vignettes/SpatialOmicsOverlay.Rmd
vignettes/images/pyramidalTIFF.png
