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imageHTS (version 1.22.0)

Analysis of high-throughput microscopy-based screens

Description

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.

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Version

Version

1.22.0

License

LGPL-2.1

Maintainer

Joseph Barry

Last Published

February 15th, 2017

Functions in imageHTS (1.22.0)

imageHTS

Package overview
prw2uname

Convert and parse well unique names
segmentWells

Segment cells in well images
highlightSegmentation

Highlight segmented objects in an image
zprime

Compute the Z'-factor quality score
makeCellHTS

Segmentation of yeast cells and ring-shaped objects.
countObjects

Count the number of objects in a segmented image
installCellPicker

Set up imageHTS web modules
getUnames

Get well unique names
popCellPicker

Pop up imageHTS web modules
segmentYeastBF

Segmentation of yeast cells and ring-shaped objects.
collectCellFeatures

Collect cell features.
parseDCF

Parse a DCF file
parseImageConf

Instantiate an imageHTS object
segmentATH

Segmentation and quantification of cells stained for DNA, actin and tubulin.
getImageConf

Get the imageHTS configuration
getWellFeatures

Get well metadata, features and annotation information
readLearnTS

Learn, classify and predict cell labels.
summarizeWells

Summarize cell features
extractFeatures

Extract features from segmented images.
fileHTS

Get access to screen data files