arrayTrend {MANOR}R Documentation

Spatial trend of microarray spots statistic

Description

The function arrayTrend computes the spatial trend.

Usage

arrayTrend.default(Statistic, Col, Row, ...)
arrayTrend.arrayCGH(arrayCGH, variable, ...)

Arguments

Statistic Statistic to be smoothed.
Col Vector of columns coordinates.
Row Vector of rows coordinates.
arrayCGH Object of class arrayCGH.
variable Variable to be smooth.
... Parameters to be passed to loess function.

Details

Spatial trend of microarray spots statistic.

Value

Either a data frame with elements :

Trend
Col
Row


or the element Trend is added to the data.frame arrayValues of the arrayCGH object.

Note

People interested in tools for array-CGH analysis can visit our web-page: http://bioinfo.curie.fr.

Author(s)

Philippe Hupé, Philippe.Hupe@curie.fr.

References

P. Neuvial, P. Hupé, I. Brito, S. Liva, E. Manié, C. Brennetot, A. Aurias, F. Radvanyi, and E. Barillot. Spatial normalization of array-CGH data. In preparation.

See Also

loess, loess.control.

Examples

data(spatial)  ## arrays with local spatial effects

edgeTrend <- arrayTrend(edge, "LogRatio", span=0.03, degree=1,
iterations=3, family="symmetric") 
arrayPlot(edgeTrend, "Trend", main="Spatial trend of array CGH", bar="v") 

[Package MANOR version 1.8.0 Index]