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Consistent Reproduction of Phenotype

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Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
FBAmodel-class.r		FBAmodel-class.r
README.md		README.md
alarm_death.r		alarm_death.r
alarm_growth.r		alarm_growth.r
alarm_script.r		alarm_script.r
all_supps_by_genes.r		all_supps_by_genes.r
analyze_mdFba.r		analyze_mdFba.r
annot_seed_rxns.r		annot_seed_rxns.r
biolog_compare.r		biolog_compare.r
biolog_confusion.r		biolog_confusion.r
call_check_ko.r		call_check_ko.r
call_farm.r		call_farm.r
changeNuts.r		changeNuts.r
check_compartments.r		check_compartments.r
check_fba.r		check_fba.r
check_goals.r		check_goals.r
check_growth.r		check_growth.r
check_ko.r		check_ko.r
check_ko_ec.r		check_ko_ec.r
check_model_growth.r		check_model_growth.r
check_new_media.r		check_new_media.r
check_rhs.r		check_rhs.r
check_rxn.r		check_rxn.r
check_seed_growth.r		check_seed_growth.r
check_stories.r		check_stories.r
collate_rxn_annots.r		collate_rxn_annots.r
cut_mets.r		cut_mets.r
cut_revs.r		cut_revs.r
essGenes_fromMlab_table.r		essGenes_fromMlab_table.r
ess_genes_script.r		ess_genes_script.r
explain_SLs.r		explain_SLs.r
explain_SLs_fcns.r		explain_SLs_fcns.r
farm_config.r		farm_config.r
farm_growth.r		farm_growth.r
farm_header.r		farm_header.r
farm_init.r		farm_init.r
farm_meta.r		farm_meta.r
farm_script.r		farm_script.r
farm_seed.r		farm_seed.r
farm_vogel_seed.r		farm_vogel_seed.r
fba.r		fba.r
fba_dual.r		fba_dual.r
fba_na.r		fba_na.r
fix_bm_coeffs.r		fix_bm_coeffs.r
flux_of_met.r		flux_of_met.r
fva.r		fva.r
fva_fcns.r		fva_fcns.r
gapfind.r		gapfind.r
get_biomass_mass.r		get_biomass_mass.r
get_dual_constraints.r		get_dual_constraints.r
get_gene_supp_mat.r		get_gene_supp_mat.r
get_imbalance.r		get_imbalance.r
get_md_constraints_3c.r		get_md_constraints_3c.r
get_met_mat.r		get_met_mat.r
get_nut_uptakes.r		get_nut_uptakes.r
get_sachs_genes.r		get_sachs_genes.r
get_ub.r		get_ub.r
get_ub_script.r		get_ub_script.r
get_wrong_dir_rxns.r		get_wrong_dir_rxns.r
get_x0.r		get_x0.r
get_x0_4_matlab.r		get_x0_4_matlab.r
get_x0_md.r		get_x0_md.r
get_x0_md_multi.r		get_x0_md_multi.r
get_x0_simple.r		get_x0_simple.r
globals.r		globals.r
imbalance_meta.r		imbalance_meta.r
imbalance_seed.r		imbalance_seed.r
irrev2rev.r		irrev2rev.r
make_biomass.r		make_biomass.r
make_dual_mat_test.r		make_dual_mat_test.r
make_grid.r		make_grid.r
make_rxn_annot.r		make_rxn_annot.r
make_s.r		make_s.r
make_seed_s.r		make_seed_s.r
make_sink.r		make_sink.r
merge_DBs.r		merge_DBs.r
metab_dilute_s.r		metab_dilute_s.r
minFlux4met.r		minFlux4met.r
min_bad_rxns.r		min_bad_rxns.r
min_export.r		min_export.r
min_met_adj.r		min_met_adj.r
min_meta_rxns.r		min_meta_rxns.r
min_pen.r		min_pen.r
move2matlab.r		move2matlab.r
multiGeneKO.r		multiGeneKO.r
my_rectangle.r		my_rectangle.r
named_vec.r		named_vec.r
ncu2rxns.r		ncu2rxns.r
non_supp_rescues.r		non_supp_rescues.r
parse_smm.r		parse_smm.r
parse_supp.r		parse_supp.r
phenos2rxns.r		phenos2rxns.r
predict_biolog.r		predict_biolog.r
print_fluxes.r		print_fluxes.r
probs4rxns.r		probs4rxns.r
process_dartmouth.r		process_dartmouth.r
process_seed.r		process_seed.r
r2mat.r		r2mat.r
read_fba.r		read_fba.r
run_biolog_confusion.r		run_biolog_confusion.r

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This is the repository that contains the code for Consistent Reproduction of Phenotype as described in Text S3 ofReconstruction and Validation of a Genome-scale Metabolic Model for the Filamentous FungusNeurospora crassa

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