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cellHTS (version 1.38.0)

Analysis of cell-based screens

Description

Analysis of cell-based RNA interference screens

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Version

Version

1.38.0

License

Artistic-2.0

Maintainer

Ligia Bras

Last Published

February 15th, 2017

Functions in cellHTS (1.38.0)

getMatrix

Create a matrix with replicate data in columns
plotSpatialEffects

Plate plot with the row and column offsets estimated by the B score method
imageScreen

Experiment-wide quality control plot of a cellHTS object
write.tabdel

Wrapper to function 'write.table' used to write data to a tab-delimited file
getLibraryPlate

384-well plate assay format to a 96-well plate library format
getEnVisionRawData

Read a plate file obtain from EnVision Plate Reader
summarizeReplicates

Summarizes between normalized replicate values given in a cellHTS object, obtaining a single z-score for each probe
print.cellHTS

Printing cellHTS objects
KcViabSmall

A sample cellHTS object - D. melanogaster genome-wide RNAi screen
KcViab

A sample cellHTS object - D. melanogaster genome-wide RNAi screen
plotPlateLibrary

Plate plot of the raw data of the four consecutive 96-well plates of a given 384-well plate
oneRowPerId

Rearrange dataframe entries such that there is exactly one row per ID.
normalizeChannels

Normalization of dual-channel data and data transformation
normalizePlates

Plate-wise data normalization, and data transformation
Bscore

B score normalization
configure

Configures the plates and plate result files
screenMatch

Matching the gene annotation of two screens
writeReport

Create a directory with HTML pages of linked tables and plots documenting the contents of a cellHTS object
summarizeChannels

Normalization and transformation of dual-channel data
writeTab

Write the data from a cellHTS object to a tab-delimited file
annotate

Annotates the gene IDs of a given cellHTS object
bdgpbiomart

Dataset with annotation of CG identifiers
readPlateData

Read a collection of plate reader data files
ROC

Creates an object of class "ROC" which can be plotted as a ROC curve