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yaqcaffy (version 1.32.0)

Affymetrix expression data quality control and reproducibility analysis

Description

Quality control of Affymetrix GeneChip expression data and reproducibility analysis of human whole genome chips with the MAQC reference datasets.

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Version

Version

1.32.0

License

Artistic-2.0

Maintainer

Laurent Gatto

Last Published

February 15th, 2017

Functions in yaqcaffy (1.32.0)

getRatioProbes

Get the names of degradation control probes on the array
getAllInt

Get the summerized MAS5 values for a given spike probe
yaqc.plot

Plots a YAQCStats object
probeSelectionInterface

Tcltk Interface to Generate an Instance of YaqcControlProbes for a given Chip Set
getBioProbes

Get the names of the Bio spike probes on the array
getQCRatios

Compute qc probe ratios using GCOS intensity values
yaqc.affy

'YAQCStats' constructor
getOutliers

Get outliers for the different YAQCStatsObject slots
reprodPlot

Plot human whole genome GeneChips reproductibility
getSpikeProbes

Get the names of all spike probes on the array
YAQCStats-class

Class "YAQCStats"
YaqcControlProbes-class

Class "YaqcControlProbes"