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| costMatrix | Segmentation cost matrix |
| findSegments | Fit a piecewise constant curve to a sequence of numbers |
| getAttributeField | Extract the value of a certain field out of a character vector such as in the "attributes" column of a GFF table. |
| isWithinInterval | Test whether a vector of numbers is within a vector of intervals |
| otherStrand | Return the name of the opposite strand |
| plotAlongChrom | Plot microarray data and annotation features along a chromosomal region |
| plotAlongChrom2 | Plot the results of segmentation along a chromosomal region |
| posMin | Find the smallest positive number in a vector |
| qualityReport | Assess quality of normalized poly-A-RNA samples |
| scoreSegments | Score segments |