MetamapsDB (version 0.0.2)

lookupTable: generates `lookupTable` for filtering raw data post gene centric assembly

Description

returns three tables, 1. gene centric assembly readOrigin identities, 2. homologySearch assignment, 3 superimposed

Usage

lookupTable(genesOfInterest = scg,
  annotations = "~/simulation_fr_the_beginning/out/template.csv", rs)

Arguments

genesOfInterest

the kos of interest defaults to scg must be in the ko:KXXXXX format

annotations

table containing the number of KOs for each taxID

rs

processed readStatuses from newbler output

Examples

# NOT RUN {
anno = "~/simulation_fr_the_beginning/out/template.csv"
rs = lapply(dynList, function(x) x$rs %>% mutate(ko = x$ko)) %>%
   do.call(rbind,.)
output = lookupTable(genesOfInterest = scg,
   annotations = anno, rs)
e
# }