showPhys prints the names of the available physiologies that can be
imported with the physiologies function. This function
should be used by developers/curators.
showPhys(whichNames = "all")A character vector with the names of the physiologies.
showPhys()
#> [1] "COGEM pathogenicity rating"
#> [2] "acetate producing"
#> [3] "aerophilicity"
#> [4] "animal pathogen"
#> [5] "antimicrobial resistance"
#> [6] "antimicrobial sensitivity"
#> [7] "arrangement"
#> [8] "biofilm formation"
#> [9] "biosafety level"
#> [10] "butyrate producing"
#> [11] "coding genes"
#> [12] "country"
#> [13] "disease association"
#> [14] "extreme environment"
#> [15] "genome size"
#> [16] "geographic location"
#> [17] "gram stain"
#> [18] "growth medium"
#> [19] "growth temperature"
#> [20] "habitat"
#> [21] "halophily"
#> [22] "health associated"
#> [23] "hemolysis"
#> [24] "host-associated"
#> [25] "hydrogen gas producing"
#> [26] "isolation site"
#> [27] "lactate producing"
#> [28] "length"
#> [29] "metabolite production"
#> [30] "metabolite utilization"
#> [31] "motility"
#> [32] "mutation rate per site per generation"
#> [33] "mutation rate per site per year"
#> [34] "optimal ph"
#> [35] "pathogenicity human"
#> [36] "plant pathogenicity"
#> [37] "shape"
#> [38] "sphingolipid producing"
#> [39] "spore formation"
#> [40] "spore shape"
#> [41] "width"
showPhys('bacdive')
#> [1] "aerophilicity" "animal pathogen" "biosafety level"
#> [4] "country" "growth medium" "geographic location"
#> [7] "gram stain" "halophily" "hemolysis"
#> [10] "isolation site" "metabolite production" "metabolite utilization"
#> [13] "motility" "pathogenicity human" "shape"
#> [16] "spore formation" "growth temperature"
showPhys('spreadsheets')
#> [1] "acetate producing"
#> [2] "aerophilicity"
#> [3] "animal pathogen"
#> [4] "antimicrobial resistance"
#> [5] "antimicrobial sensitivity"
#> [6] "arrangement"
#> [7] "biofilm formation"
#> [8] "butyrate producing"
#> [9] "COGEM pathogenicity rating"
#> [10] "disease association"
#> [11] "extreme environment"
#> [12] "gram stain"
#> [13] "growth medium"
#> [14] "growth temperature"
#> [15] "habitat"
#> [16] "health associated"
#> [17] "host-associated"
#> [18] "hydrogen gas producing"
#> [19] "isolation site"
#> [20] "lactate producing"
#> [21] "length"
#> [22] "mutation rate per site per generation"
#> [23] "mutation rate per site per year"
#> [24] "optimal ph"
#> [25] "plant pathogenicity"
#> [26] "shape"
#> [27] "spore shape"
#> [28] "width"
#> [29] "genome size"
#> [30] "coding genes"
#> [31] "sphingolipid producing"