Man pages for MiChip
MiChip Parsing and Summarizing Functions
| boxplotData | Create Boxplot of data |
| boxplotDataNoFile | Create Boxplot of data |
| correctForFlags | Corrects for spots flagged as not present |
| MiChip | Introduction to the MiChip Package |
| myForgivingMedian | Produce Median from Probe Intensity values |
| naOmitMedian | Calculates the median of an array excluding NAs |
| normalizePerChipMedian | Normalize to median intensity |
| outputAnnotatedDataMatrix | Outputs a tab delimited file from an ExpressionSet |
| panelCor | Add Pearson Correlation value to plots |
| parseRawData | Parse raw data files to create an ExpressionSet |
| plotIntensitiesScatter | Plot pairwise intensity scatter |
| removeUnwantedRows | Removes unwanted rows from data matrix |
| returnAnnotatedDataMatrix | returns and annotated data matrix from an ExpressionSet |
| setIntensityCutoff | Sets a cutoff for the lowest intensity value |
| standardRemoveRows | Removes a standard list of features for MiChip processing |
| summarizeIntensitiesAsMedian | Summarizes the probe intensity as median of replicates... |
| workedExampleMedianNormalize | Worked Example of MiChip Processing |
| workedExampleNotNormalizedData | Worked Example of MiChip Processing |
