Inactivegenedeletion

deleteInactiveGenes(model, trData, trDataPath, thApproach, lowerTh, upperTh, sheetIndex, growthNotAffectingGeneDel, percentile)

Returns a tissue specific model with inactive genes deleted

USAGE

model = deleteInactiveGenes (model, trData, trDataPath, thApproach, lowerTh, upperTh, sheetIndex, growthNotAffectingGeneDel, percentile)

INPUTS

• model – model strusture

• trData – table with columns ‘GeneId’ and ‘Data’

• trDataPath – char full transcriptomics data filename

• thApproach – double (1-GT1, 2-LT1, 3-LT2)

• lowerTh – double

• upperTh – double (required for LT2)

• sheetIndex – double transcriptomics dataset sheet index

• growthNotAffectingGeneDel – double (1 or 0) check if grRatio equals 1 after gene deletion compared to wildtype

• percentile – double (1 or 0) bool option to convert thresholds to percentile value

OUTPUTS

model – extracted model