imageHTS: Analysis of high-throughput microscopy-based screens

imageHTS is an R package dedicated to the analysis of high-throughput microscopy-based screens. The package provides a modular and extensible framework to segment cells, extract quantitative cell features, predict cell types and browse screen data through web interfaces. Designed to operate in distributed environments, imageHTS provides a standardized access to remote data and facilitates the dissemination of high-throughput microscopy-based datasets.

AuthorGregoire Pau, Xian Zhang, Michael Boutros, Wolfgang Huber
Date of publicationNone
MaintainerJoseph Barry <joseph.barry@embl.de>
LicenseLGPL-2.1
Version1.24.0

View on Bioconductor

Functions

collectCellFeatures Man page
countObjects Man page
extractFeatures Man page
fileHTS Man page
getCellFtrsATH Man page
getImageConf Man page
getUnames Man page
getWellFeatures Man page
highlightSegmentation Man page
imageHTS Man page
imageHTS-class Man page
installCellPicker Man page
installWebQuery Man page
makeCellHTS Man page
parseDCF Man page
parseImageConf Man page
popCellPicker Man page
popWebQuery Man page
predictCellLabels Man page
prw2uname Man page
readHTS Man page
readLearnTS Man page
rowcol2well Man page
segmentATH Man page
segmentRing Man page
segmentWells Man page
segmentYeastBF Man page
summarizeWells Man page
uname2prw Man page
well2rowcol Man page
well2wellid Man page
zprime Man page

Files

imageHTS/.BBSoptions
imageHTS/CHANGES
imageHTS/DESCRIPTION
imageHTS/NAMESPACE
imageHTS/R
imageHTS/R/cellPicker.R imageHTS/R/classification.R imageHTS/R/configure.R imageHTS/R/extractFeatures-methods.R imageHTS/R/extractFeatures.R imageHTS/R/imageHTS.R imageHTS/R/makeCellHTS.R imageHTS/R/quality.R imageHTS/R/segmentation-segmentATH.R imageHTS/R/segmentation-segmentYeastBF.R imageHTS/R/segmentation.R imageHTS/R/summarize.R imageHTS/R/webQuery.R
imageHTS/TODO
imageHTS/build
imageHTS/build/vignette.rds
imageHTS/inst
imageHTS/inst/NEWS.Rd
imageHTS/inst/cellpicker
imageHTS/inst/cellpicker/cellpicker.html
imageHTS/inst/cellpicker/css
imageHTS/inst/cellpicker/css/cellpicker.css
imageHTS/inst/cellpicker/css/ie.css
imageHTS/inst/cellpicker/javascript
imageHTS/inst/cellpicker/javascript/cellpicker_functions.js
imageHTS/inst/cellpicker/javascript/next_image.js
imageHTS/inst/cellpicker/javascript/var_ini.js
imageHTS/inst/cellpicker/javascript/wz_jsgraphics.js
imageHTS/inst/cellpicker/javascript/wz_tooltip.js
imageHTS/inst/doc
imageHTS/inst/doc/imageHTS-introduction.R
imageHTS/inst/doc/imageHTS-introduction.Rnw
imageHTS/inst/doc/imageHTS-introduction.pdf
imageHTS/inst/submorph
imageHTS/inst/submorph/conf
imageHTS/inst/submorph/conf/annotation.txt
imageHTS/inst/submorph/conf/description.txt
imageHTS/inst/submorph/conf/featurepar.txt
imageHTS/inst/submorph/conf/imageconf.txt
imageHTS/inst/submorph/conf/plateconf.txt
imageHTS/inst/submorph/conf/screenlog.txt
imageHTS/inst/submorph/conf/segmentationpar.txt
imageHTS/inst/submorph/conf/trainingset.txt
imageHTS/inst/submorph/data
imageHTS/inst/submorph/data/classifier.rda
imageHTS/inst/submorph/data/profiles.tab
imageHTS/inst/submorph/source
imageHTS/inst/submorph/source/PK-10B-pl1
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A003
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A003/FITC.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A005
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A005/FITC.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A005/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-A005/Tritc.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B003
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B003/FITC.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B005
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B005/FITC.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B005/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-B005/Tritc.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-C003
imageHTS/inst/submorph/source/PK-10B-pl1/Well-C003/FITC.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-C003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-C003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-D003
imageHTS/inst/submorph/source/PK-10B-pl1/Well-D003/FITC.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-D003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-10B-pl1/Well-D003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A003
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A003/FITC.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A005
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A005/FITC.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A005/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-A005/Tritc.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B003
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B003/FITC.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B005
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B005/FITC.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B005/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-B005/Tritc.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-C003
imageHTS/inst/submorph/source/PK-11B-pl1/Well-C003/FITC.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-C003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-C003/Tritc.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-D003
imageHTS/inst/submorph/source/PK-11B-pl1/Well-D003/FITC.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-D003/Hoechst.jpeg
imageHTS/inst/submorph/source/PK-11B-pl1/Well-D003/Tritc.jpeg
imageHTS/inst/submorph/submorph.R
imageHTS/inst/webquery
imageHTS/inst/webquery/index.php
imageHTS/inst/yeast.jpeg
imageHTS/man
imageHTS/man/collectCellFeatures.Rd imageHTS/man/countObjects.Rd imageHTS/man/extractFeatures.Rd imageHTS/man/fileHTS.Rd imageHTS/man/getImageConf.Rd imageHTS/man/getUnames.Rd imageHTS/man/getWellFeatures.Rd imageHTS/man/highlightSegmentation.Rd imageHTS/man/imageHTS.Rd imageHTS/man/installCellPicker.Rd imageHTS/man/makeCellHTS.Rd imageHTS/man/parseDCF.Rd imageHTS/man/parseImageConf.Rd imageHTS/man/popCellPicker.Rd imageHTS/man/prw2uname.Rd imageHTS/man/readLearnTS.Rd imageHTS/man/segmentATH.Rd imageHTS/man/segmentWells.Rd imageHTS/man/segmentYeastBF.Rd imageHTS/man/summarizeWells.Rd imageHTS/man/zprime.Rd
imageHTS/vignettes
imageHTS/vignettes/cellpicker.jpeg
imageHTS/vignettes/imageHTS-introduction.Rnw
imageHTS/vignettes/imageHTS.bib
imageHTS/vignettes/webquery.jpeg

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.