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.

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

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