Description Usage Arguments Value Author(s) See Also Examples
This function selects the y chromosome probe data for each sample.
1 | massi_select(expression_data, y_probes, threshold = 3)
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expression_data |
The expression.data item contains normalized array expression data for all samples. This can be a data.frame with sample names as columns and probe id's as row names. This argument also allows the specification of an ExpressionSet object. |
y_probes |
A data.frame of probe id's in one column that match y chromosome genes for the array platform. massiR includes probes for several Illumina and Affymetrix platforms. Details on using these probes are included in the vignette and the |
threshold |
The threshold value corresponds to probe variation quantiles.
This option allows the selection of the most variable probes. Deciding on a probe threshold value should be informed by viewing the plot generated by the |
A data.frame containing the subset of y chromosome probe values for each sample.
Sam Buckberry
massi_y, massi_cluster, massi_y_plot, massi_dip, massi_cluster_plot
1 2 3 | data(massi.test.dataset, massi.test.probes)
massi_select(expression_data=massi.test.dataset, y_probes=massi.test.probes)
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