kda.finish.save {Mergeomics} | R Documentation |
kda.finish.save
sorts (according to KD p-values) and saves
the wKDA results into specified files and folders.
kda.finish.save(res, job)
res |
the results obtained from |
job |
information including the entire graph, nodes, modules, co-hubs,
top key driver of each module, and their updated and sorted p-values.
All the information included |
res |
the results obtained from |
Ville-Petteri Makinen
Shu L, Zhao Y, Kurt Z, Byars SG, Tukiainen T, Kettunen J, Orozco LD, Pellegrini M, Lusis AJ, Ripatti S, Zhang B, Inouye M, Makinen V-P, Yang X. Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems. BMC genomics. 2016;17(1):874.
kda.finish
, kda.finish.estimate
,
kda.finish.summarize
, kda.finish.trim
## get the prepared and KDA applied dataset:(see kda.analyze for details) data(job_kda_analyze) ## finish the KDA process by estimating additional measures for the modules ## such as module sizes, overlaps with hub neighborhoods, etc. # job.kda <- kda.finish(job.kda) # if (nrow(job.kda$results)==0){ # cat("No Key Driver Found!!!!") # } else{ ## Estimate additional measures - see kda.analyze and kda.finish for details # res <- kda.finish.estimate(job.kda) ## Save full results about modules such as co-hub, nodes, P-values info etc. # res <- kda.finish.save(res, job.kda) # }