metaboGSE News

Changes in version 1.2.4 2020-05-07

• Remove dependence on GO.db, ctc, clpAPI, KernSmooth.

Changes in version 1.2.3 2020-01-03

• Remove dependence on topGO.

• Move GO.db to Imports.

Changes in version 1.2.2 2019-12-06

• Change sys::eval_safe to unix::eval_safe

• Use fixObjVal = F in fluxVar

• Move topGO to Suggests.

Changes in version 1.2.1 2018-12-12

• Supply the list of metabolites in each submodel

• Supply the AUC difference in posthoc pairwise comparisons

• Rescue both subtrates and products of reactions in the objective function to reduce bugs of infinite loops in LP.

Changes in version 1.2.0 2018-11-22

• Introduce the option timeout to the function rescue, fitness and submnet to deal with the bug of infinite loop in optimizeProb and fluxVar from sybil with different solvers.

• Fix the function bestRanking to deal with the NA values obtained in infeasible LP.

Changes in version 1.1.2 2018-10-16

• Suggest in the vignette to improve the ranking for genes of identical expression in each sample with the overall expression in all the samples.

Changes in version 1.1.1 2018-09-24

• Rescue only substrates, but not products, of reactions in the objective function.

Changes in version 1.1.0 2018-08-07

• Modify the fitness formulation

• Introduce the function fitness to separate the evaluation of gene rankings and the construction of submodels with the best ranking.

• Restructure the function metaboGSE.

Changes in version 1.0.2 2018-04-13

• Fix CRAN submission errors.