tilingArray-package |
tilingArray package overview |
BGindex |
Find the index of the exact match (PM) or background probes from a probeAnno environment |
breakpoints.breakpointsPretend |
Accessor methods for breakpointsPretend objects - not to be called by the user. |
comparisonPlot |
Plot a vertical layout of panels for the comparison of different along-chromosome profiles. |
confint |
The class segmentation represents a segmentation result. |
confint-method |
The class segmentation represents a segmentation result. |
costMatrix |
Segmentation cost matrix |
findSegments |
Fit a piecewise constant curve to a sequence of numbers - OBSOLETE, please use function segment instead. |
gffSub |
Example of a genomic feature object |
logLik |
The class segmentation represents a segmentation result. |
logLik-method |
The class segmentation represents a segmentation result. |
normalizeByReference |
Probe-specific normalization of hybridization intensities from an oligonucleotide microarray |
otherStrand |
Return the name of the opposite strand |
plot-method |
The class segmentation represents a segmentation result. |
plotAlongChrom |
Plot signals and segmentation for a region of a chromosome |
plotAlongChromLegend |
Plot a legend for genomic features |
plotFeatures |
Plot genomic features for a region along a chromosome |
plotPenLL |
Plot the log-likelihood and penalized log-likelihoods (AIC, BIC) |
plotSegmentationDots |
Plot points for a region along a chromosome |
plotSegmentationHeatmap |
Plot a heatmap diagram for a region along a chromosome |
PMindex |
Find the index of the exact match (PM) or background probes from a probeAnno environment |
posMin |
Find the smallest positive number in a vector |
qcPlots |
Generate simple diagnostic plots for Affymetrix tiling array data |
readCel2eSet |
Read celfiles into an ExpressionSet object. |
residuals.breakpointsPretend |
Accessor methods for breakpointsPretend objects - not to be called by the user. |
sampleStep |
Sampling of ascending numbers to ensure minimal spacing. |
segChrom |
Fit a piecewise constant curve to along chromosome data (wrapper function) |
segment |
Fit a piecewise constant curve: segmentation by dynamic programming |
segmentation-class |
The class segmentation represents a segmentation result. |
segnf |
Example of a segmentation output object |
show-method |
The class segmentation represents a segmentation result. |
tilingArray |
tilingArray package overview |