bestRanking |
Identify the best ranking |
exprMaguire |
Gene expression from Maguire et al. RNA-seq data |
fitness |
Fitness of gene removal-based submodels with different gene rankings |
iMK735 |
iMK735 metabolic models in hypoxia and normoxia |
metaboGSE |
Gene set enrichment analysis |
pwDesc |
Description of gene set IDs |
relativeExpr |
Relative expression data (log2 counts) |
rescue |
Rescue a model |
rmGenes |
Generate a submodel by removing genes |
scoreGeneDel |
Structure of Class "scoreGeneDel" |
simulateSubmnet |
Plot fitness of submodels built by gene removal in a condition |
submnet |
Simulation of gene removal-based submodel series with a given ranking |
weightReacts |
Compute weights of rescue reactions |
yarli2GO |
GO annotation retrieved from Uniprot |
yarliGSE |
Gene set enrichment example for Yarrowia lipolytica |
yarliSubmnets |
Submodel construction example for Yarrowia lipolytica |
zscoreExpr |
Z-score of expression data |