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prada (version 1.48.0)

Data analysis for cell-based functional assays

Description

Tools for analysing and navigating data from high-throughput phenotyping experiments based on cellular assays and fluorescent detection (flow cytometry (FACS), high-content screening microscopy).

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Version

Version

1.48.0

License

LGPL

Maintainer

Florian Hahne

Last Published

February 15th, 2017

Functions in prada (1.48.0)

Remove rows that contain censored data

cytoFrame-class

'cytoFrame': a class for storing observed quantitative properties from a population of cells, most likely from a FACS run or, alternatively, from automated microscopy

Apply a function over the intensities in a cytoSet

Apply a statistic to the data from each well in a plate

Internal functions

Internal functions called by other gating functions

Coercion without introduction of NAs

'cytoSet': a class for storing raw data from a quantitative cell-based assay

Combine the cytoFrames within a cytoSet according to some grouping factor

Read an FCS file

Barplot with error bars.

A sample cytoFrame object - German Cancer Research Center Heidelberg -

'gateSet': a class for subsetting flow-cytometry data by defining multiple regions in two-dimesional projections of the data

Plot fitted bivariate normal distribution.

Set and query global parameters for functions in the prada package

Resolution of current plotting device

Discretize a two-dimensional data space into quadrants by applying thresholds

Auxiliary functions for readFCS

Device Dimensions for plate plots

Fit bivariate normal distribution.

Absolute location of current viewport

getAlphaNumeric

Convert from plate coordinates to alphanumeric notation.

'gate': a class for subsetting flow-cytometry data by defining regions in two-dimesional projections of the data

A sample cytoSet object - German Cancer Research Center Heidelberg -

Visualize cytometry data

Plot a well statistic for microtiter plates.

A simple tcltk progress window

Create a cytoSet object from one or more FCS 3.0 files

Check for FCS files