diff options
Diffstat (limited to 'man/saem.Rd')
| -rw-r--r-- | man/saem.Rd | 23 |
1 files changed, 16 insertions, 7 deletions
diff --git a/man/saem.Rd b/man/saem.Rd index 96b8b55a..b2daf419 100644 --- a/man/saem.Rd +++ b/man/saem.Rd @@ -77,7 +77,7 @@ f_saem_sfo <- saem(f_mmkin_parent["SFO", ]) f_saem_fomc <- saem(f_mmkin_parent["FOMC", ]) f_saem_dfop <- saem(f_mmkin_parent["DFOP", ]) -# The returned saem.mmkin object contains an SaemixObject, we can use +# The returned saem.mmkin object contains an SaemixObject, therefore we can use # functions from saemix library(saemix) compare.saemix(list(f_saem_sfo$so, f_saem_fomc$so, f_saem_dfop$so)) @@ -86,17 +86,26 @@ f_mmkin_parent_tc <- update(f_mmkin_parent, error_model = "tc") f_saem_fomc_tc <- saem(f_mmkin_parent_tc["FOMC", ]) compare.saemix(list(f_saem_fomc$so, f_saem_fomc_tc$so)) +sfo_sfo <- mkinmod(parent = mkinsub("SFO", "A1"), + A1 = mkinsub("SFO")) +fomc_sfo <- mkinmod(parent = mkinsub("FOMC", "A1"), + A1 = mkinsub("SFO")) dfop_sfo <- mkinmod(parent = mkinsub("DFOP", "A1"), A1 = mkinsub("SFO")) -f_mmkin <- mmkin(list("DFOP-SFO" = dfop_sfo), ds, quiet = TRUE, solution_type = "analytical") -# This takes about 4 minutes on my system -f_saem <- saem(f_mmkin) +# The following fit uses analytical solutions for SFO-SFO and DFOP-SFO, +# and compiled ODEs for FOMC, both are fast +f_mmkin <- mmkin(list( + "SFO-SFO" = sfo_sfo, "FOMC-SFO" = fomc_sfo, "DFOP-SFO" = dfop_sfo), + ds, quiet = TRUE) +# These take about five seconds each on this system, as we use +# analytical solutions written for saemix. When using the analytical +# solutions written for mkin this took around four minutes +f_saem_sfo_sfo <- saem(f_mmkin["SFO-SFO", ]) +f_saem_dfop_sfo <- saem(f_mmkin["SFO-SFO", ]) -f_mmkin_des <- mmkin(list("DFOP-SFO" = dfop_sfo), ds, quiet = TRUE, solution_type = "deSolve") # Using a single core, the following takes about 6 minutes, using 10 cores # it is slower instead of faster -f_saem_des <- saem(f_mmkin_des, cores = 1) -compare.saemix(list(f_saem$so, f_saem_des$so)) +f_saem_fomc <- saem(f_mmkin["FOMC-SFO", ], cores = 1) } } \seealso{ |