arrayTrend {MANOR} | R Documentation |
The function arrayTrend
computes the spatial trend.
## Default S3 method: arrayTrend(Statistic, Col, Row, ...) ## S3 method for class 'arrayCGH' arrayTrend(arrayCGH, variable, ...)
Statistic |
Statistic to be smoothed. |
Col |
Vector of columns coordinates. |
Row |
Vector of rows coordinates. |
arrayCGH |
Object of class |
variable |
Variable to be smooth. |
... |
Parameters to be passed to |
Spatial trend of microarray spots statistic.
Either a data frame with elements :
Trend |
Trend fitted by |
Col |
Vector of columns coordinates. |
Row |
Vector of rows coordinates. |
or the element Trend
is added to the data.frame arrayValues
of the arrayCGH
object.
People interested in tools for array-CGH analysis can visit our web-page: http://bioinfo.curie.fr.
Philippe Hup?, Philippe.Hupe@curie.fr.
P. Neuvial, P. Hup?, I. Brito, S. Liva, E. Mani?, C. Brennetot, A. Aurias, F. Radvanyi, and E. Barillot. Spatial normalization of array-CGH data. BMC Bioinformatics, 7(1):264. May 2006.
data(spatial) ## arrays with local spatial effects edgeTrend <- arrayTrend(edge, "LogRatio", span=0.03, degree=1, iterations=3, family="symmetric") GLAD::arrayPlot(edgeTrend, "Trend", main="Spatial trend of array CGH", bar="v")