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

Nanostring-Biostats/SpatialOmicsOverlay documentation built on April 20, 2024, 5:36 a.m.