bioimagetools: Tools for Microscopy Imaging

Tools for 3D imaging, mostly for biology/microscopy. Read and write TIFF stacks. Functions for segmentation, filtering and analysing 3D point patterns.

Install the latest version of this package by entering the following in R:
install.packages("bioimagetools")
AuthorVolker Schmid [aut, cre], Priyanka Kukreja [ctb], Fabian Scheipl [ctb]
Date of publication2017-02-18 22:41:07
MaintainerVolker Schmid <stats@volkerschmid.de>
LicenseGPL-3
Version1.1.0
https://bioimaginggroup.github.io/bioimagetools

View on CRAN

Functions

bwlabel3d Man page
cmoments3d Man page
cnnTest Man page
crossNN Man page
distance2border Man page
filterImage3d Man page
folder.choose Man page
img Man page
intensity3D Man page
K.cross.3D Man page
L.cross.3D Man page
mexican.hat.brush Man page
nearestClassDistance Man page
nearestClassDistances Man page
nearest.neighbour.distribution Man page
outside Man page
plotNearestClassDistances Man page
readBMP Man page
readClassTIF Man page
readTIF Man page
segment Man page
segment.outside Man page
spots Man page
standardize Man page
table.n Man page
testColoc Man page
writeTIF Man page

Files

TODO
inst
inst/extdata
inst/extdata/cell.csv
inst/extdata/V.bmp
inst/extdata/amask.tif
inst/extdata/kreispunkte.table
inst/extdata/kringel.tif
inst/doc
inst/doc/readwriteplot.Rmd
inst/doc/readwriteplot.html
inst/doc/bioimagetools.Rmd
inst/doc/readwriteplot.R
src
src/Makevars
src/getid.c
src/bioimagetools.h
src/segment.c
src/filter.c
src/Makevars.win
src/init.c
src/nearestClassDistances.c
NAMESPACE
NEWS
R
R/bwlabel3d.R R/cmoments3d.R R/readClassTIF.R R/isline.R R/spots.R R/nearestclassdistances_c.R R/writetif.R R/findedges.R R/cNNTest.R R/Kcross3D.R R/nearestneighbourenvelope.R R/segment.R R/pcfcross3d.R R/pcfcross3denvelope.R R/readbmp.R R/status.R R/readtif.R R/computedistances.R R/folder_choose.R R/intensity3d.R R/nearestneighbours.R R/standardize.R R/mexican_hat_brush.R R/Lcross3denvelope.R R/findmaxline.R R/image.R R/point2class.R R/pcf3d.R R/nearestclassdistances.R R/crossNN.R R/onattach.R R/nearestneighbourdistribution.R R/testColoc.R R/isinstalled.R R/Kcross3denvelope.R R/tablen.R R/plot_nearest_class_distances.R R/filterImage3d.R R/outside.R R/L3cross3d.R R/distance2border.R R/segmentoutside.R
vignettes
vignettes/readwriteplot.Rmd
vignettes/readwriteplot_cache
vignettes/readwriteplot_cache/html
vignettes/readwriteplot_cache/html/img_34191bbe93b3e29109be516210e131a9.RData
vignettes/readwriteplot_cache/html/readMBP_ea19e91ac48b85eb315de3103110e182.rdx
vignettes/readwriteplot_cache/html/readclasstif_d956d368d1179aec302990b988ce25f9.rdb
vignettes/readwriteplot_cache/html/readclasstif_d956d368d1179aec302990b988ce25f9.RData
vignettes/readwriteplot_cache/html/__packages
vignettes/readwriteplot_cache/html/loadlibrary_a3224aaf1dba5036e1809275d38b1e3d.RData
vignettes/readwriteplot_cache/html/readMBP_ea19e91ac48b85eb315de3103110e182.RData
vignettes/readwriteplot_cache/html/loadlibrary_a3224aaf1dba5036e1809275d38b1e3d.rdx
vignettes/readwriteplot_cache/html/writetif_9e84b1de62b7720664e1632dfb16fe32.RData
vignettes/readwriteplot_cache/html/img_34191bbe93b3e29109be516210e131a9.rdx
vignettes/readwriteplot_cache/html/img_34191bbe93b3e29109be516210e131a9.rdb
vignettes/readwriteplot_cache/html/readclasstif_d956d368d1179aec302990b988ce25f9.rdx
vignettes/readwriteplot_cache/html/readMBP_ea19e91ac48b85eb315de3103110e182.rdb
vignettes/readwriteplot_cache/html/writetif_9e84b1de62b7720664e1632dfb16fe32.rdb
vignettes/readwriteplot_cache/html/writetif_9e84b1de62b7720664e1632dfb16fe32.rdx
vignettes/readwriteplot_cache/html/loadlibrary_a3224aaf1dba5036e1809275d38b1e3d.rdb
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/intensity3D.Rd man/mexican.hat.brush.Rd man/segment.Rd man/writeTIF.Rd man/filterImage3d.Rd man/crossNN.Rd man/folder.choose.Rd man/readTIF.Rd man/readClassTIF.Rd man/bwlabel3d.Rd man/K.cross.3D.Rd man/spots.Rd man/L.cross.3D.Rd man/outside.Rd man/img.Rd man/segment.outside.Rd man/nearestClassDistance.Rd man/nearest.neighbour.distribution.Rd man/testColoc.Rd man/cnnTest.Rd man/distance2border.Rd man/table.n.Rd man/cmoments3d.Rd man/readBMP.Rd man/nearestClassDistances.Rd man/plotNearestClassDistances.Rd man/standardize.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.