Man pages for cghRA
Array CGH Data Analysis and Visualization
| bias | WACA bias computation for a probe series |
| cghRA.array | cghRA.array class constructor |
| cghRA.array-class | Class '"cghRA.array"' |
| cghRA.copies | cghRA.copies class constructor |
| cghRA.copies-class | Class '"cghRA.copies"' |
| cghRA.design | cghRA.design class constructor |
| cghRA.design-class | Class '"cghRA.design"' |
| cghRA.probes | cghRA.probes class constructor |
| cghRA.probes-class | Class '"cghRA.probes"' |
| cghRA.regions | cghRA.regions class constructor |
| cghRA.regions-class | Class '"cghRA.regions"' |
| cghRA.series | cghRA.series class constructor |
| cghRA.series-class | Class '"cghRA.series"' |
| cnvScore | Polymorphism likelihood score for a genomic segment |
| copies | LogRatio to copies conversion |
| Design_file_parser | Design file parser |
| drawableFromClass.cghRA.probes | Extend Rgb compatibility to cghRA.probes |
| fillGaps | Fill gaps between consecutive segments |
| GEDI | Gene Expression and Dosage Integrator |
| localize | Localize CGH probes in a genome |
| map2design | Update a track coordinates to match a distinct CGH design |
| model.apply | Computes copy number for a set of CGH segments |
| model.auto | Automatic generation of copy number model |
| model.test | Copy number model quality assessment |
| parallelize | Reshapes a list of segments |
| parseKaryo | Parses a karyotype-like formula |
| penetrance | Penetrance computation from a series of segments |
| Probe_file_parser | Probe file parser |
| process | cghRA array processing |
| segmentMap-class | Class '"segmentMap"' |
| STEPS | Selective Trends Evidenced by Penetrance Surge |
| tk.annotate | Interactive cghRA track annotation |
| tk.cghRA | cghRA Tcl-Tk launcher |
| tk.design | Interactive cghRA design processing |
| tk.modelize | Interactive copy number modelization |
| tk.series | Interactive cghRA series processing |
| tk.value | Tk interface utilities |
| trace2track | Converts cnvScore traces to a drawable track |
| track.CNV.DGVsupp | DGV supporting variant parser |
| WACA | Waves aCGH Correction Algorithm |
| xRA | Short/Long Recurrent Abnormalities detection |
