Quality metrics report for microarray data sets

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Documentation for package ‘arrayQualityMetrics’ version 3.54.0

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addXYfromGAL Computing the coordinates of the spots on a slide
addXYfromGAL-methods Computing the coordinates of the spots on a slide
aqm.boxplot Functions for computing quality report modules.
aqm.density Functions for computing quality report modules.
aqm.heatmap Functions for computing quality report modules.
aqm.maplot Functions for computing quality report modules.
aqm.meansd Functions for computing quality report modules.
aqm.nuse Functions for computing quality report modules.
aqm.pca Functions for computing quality report modules.
aqm.pmmm Functions for computing quality report modules.
aqm.probesmap Functions for computing quality report modules.
aqm.rle Functions for computing quality report modules.
aqm.rnadeg Functions for computing quality report modules.
aqm.spatial Functions for computing quality report modules.
aqm.writereport Write a quality report
aqmReportModule Class to contain all the information to render a quality report module.
aqmReportModule-class Class to contain all the information to render a quality report module.
arrayQualityMetrics Quality metrics for microarray experiments
boxplotOutliers Helper functions for outlier detection and reporting in arrayQualityMetrics
class:aqmReportModule Class to contain all the information to render a quality report module.
class:outlierDetection Represents the results from applying an outlier detection criterion to the arrays.
outlierDetection Represents the results from applying an outlier detection criterion to the arrays.
outlierDetection-class Represents the results from applying an outlier detection criterion to the arrays.
outliers Helper functions for outlier detection and reporting in arrayQualityMetrics
prepaffy Compute useful summary statistics from a data object.
prepdata Compute useful summary statistics from a data object.