Man pages for SIM
Integrated Analysis on two human genomic datasets
| acgh.data | Array Comparative Genomic Hybridization data |
| assemble.data | Assemble the data to run the integrated analysis |
| chrom.table | Table with chromosome information |
| expr.data | Expression data example |
| getoverlappingregions | Get the overlapping regions between independent and dependent... |
| impute.nas.by.surrounding | Impute NA's in array-CGH data |
| integrated.analysis | Integrated analysis of dependent and indepedent microarray... |
| link.metadata | Link a metadata annotation file to expression ID |
| RESOURCERER.annotation.to.ID | Link RESOURCERER annotation file to expression ID |
| samples | Samples for example data |
| SIM-package | Statistical Integration of Microarrays |
| sim.plot.overlapping.indep.dep.features | P-value plot and mean-zscore plots with indication of... |
| sim.plot.pvals.on.genome | Plot the P-values in whole genome overview |
| sim.plot.pvals.on.region | P-value histograms and P-values along the genome per region |
| sim.plot.zoom.in | Zoom in on heatmap |
| sim.plot.zscore.heatmap | Association heatmap from z-scores |
| sim.update.chrom.table | Update the chromomosome table |
| tabulate.pvals | Sums significant P-values for the analyzed regions |
| tabulate.top.dep.features | Lists the P-values for the dependent features |
| tabulate.top.indep.features | Lists the mean z-scores for the independent features |
