diff --git a/R/NCA_Server.R b/R/NCA_Server.R index f1c29f9..50b2406 100644 --- a/R/NCA_Server.R +++ b/R/NCA_Server.R @@ -7040,9 +7040,9 @@ state} #'@param col_ntime Name of column with time since the last dose (required with \code{dose_from="cols"}). #'@param col_route Name of column with route information. #'@param col_dose Name of column with last dose given. -#'@param col_cycle Name of column with dose cycle (required with 'dose_from="cols"). +#'@param col_cycle Name of column with dose cycle (required with \code{dose_from="cols"}). #'@param col_dur Name of column with dose duration. -#'@param col_evid Name of column with event ID (required with 'dose_from="rows"). +#'@param col_evid Name of column with event ID (required with \code{dose_from="rows"}). #'@param col_analyte Name of column with analyte (optional). #'@param col_group Names of columns with grouping information (optionl). #'@return list containing the following elements diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index a9685f2..f0609c9 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -3,5 +3,5 @@ pkgdown: 2.0.7 pkgdown_sha: ~ articles: noncompartmental_analysis: noncompartmental_analysis.html -last_built: 2023-08-13T16:24Z +last_built: 2023-08-13T16:28Z diff --git a/docs/reference/NCA_append_report.html b/docs/reference/NCA_append_report.html index 6887542..1ebd5fe 100644 --- a/docs/reference/NCA_append_report.html +++ b/docs/reference/NCA_append_report.html @@ -212,7 +212,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:5bae72ec15679b26c60a7ba4812a6ba8 +#> → NCA: module checksum updated:fc53810392ee2a4aef60c367cdb40cbf #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -262,7 +262,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:8f81790b2ce9471bed9c87b5fff98f59 +#> → NCA: module checksum updated:fc4933035bcd2e86f96bd4fde8c43c1e state = sess_res$state rpt = list(summary = list(), sheets=list()) @@ -400,7 +400,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:cb6524b88c0fb672756201753f7425df +#> → NCA: module checksum updated:de2b53652ff466ff850cf375807454f2 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -450,7 +450,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:145f95409affc692fed168c9ea67ff83 +#> → NCA: module checksum updated:9c279e4ceab40513df2c32f83a856412 state = sess_res$state # here we need an empty report object for tabular data diff --git a/docs/reference/NCA_fetch_ana_ds.html b/docs/reference/NCA_fetch_ana_ds.html index c46ca5d..9375a36 100644 --- a/docs/reference/NCA_fetch_ana_ds.html +++ b/docs/reference/NCA_fetch_ana_ds.html @@ -196,7 +196,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:309736e67f9ffc85422f904893fc24c4 +#> → NCA: module checksum updated:eb57c3c1736bcaa10149fe25c2b90da7 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -246,7 +246,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:826b6be6da76734b32126ed34d6d6588 +#> → NCA: module checksum updated:caf885d426cfe83ebd25409ccead703e # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_fetch_ana_pknca.html b/docs/reference/NCA_fetch_ana_pknca.html index 686c5aa..c1067ab 100644 --- a/docs/reference/NCA_fetch_ana_pknca.html +++ b/docs/reference/NCA_fetch_ana_pknca.html @@ -196,7 +196,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:003df7c4ac564b0e368a0691e4fd7b34 +#> → NCA: module checksum updated:88312c0e5396bd1ce50bec27015b41f0 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -246,7 +246,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:2d24734e53e56770a3aa5ddab544547f +#> → NCA: module checksum updated:40733e187f3401d2a7a7d7335a453777 # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_fetch_code.html b/docs/reference/NCA_fetch_code.html index b2797f2..cf525ae 100644 --- a/docs/reference/NCA_fetch_code.html +++ b/docs/reference/NCA_fetch_code.html @@ -192,7 +192,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:d5258703c2a27bb8c4732049c51630e6 +#> → NCA: module checksum updated:6a9df340ae3bead97b5bdd5415b325f1 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -242,7 +242,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:9001c85190bf6c3b624f52a1fec9b0df +#> → NCA: module checksum updated:511159e72006ba06882679cd5a85523d # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_fetch_current_ana.html b/docs/reference/NCA_fetch_current_ana.html index 3d87359..ce23e7e 100644 --- a/docs/reference/NCA_fetch_current_ana.html +++ b/docs/reference/NCA_fetch_current_ana.html @@ -194,7 +194,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:f6b1bd3dfbad017b159c650571117a59 +#> → NCA: module checksum updated:4638d315410d44b063b00b0cd880dae8 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -244,7 +244,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:1a020398778df2d4d0edf41a4037419b +#> → NCA: module checksum updated:85458b8cec11f51bd7d4bc000ad29ed0 # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_fetch_current_obj.html b/docs/reference/NCA_fetch_current_obj.html index 72edaa9..bf1629f 100644 --- a/docs/reference/NCA_fetch_current_obj.html +++ b/docs/reference/NCA_fetch_current_obj.html @@ -206,7 +206,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:fd6787db6059267d4a3c4753948c7934 +#> → NCA: module checksum updated:02210737490eb12f18f02031c63a73a6 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -256,13 +256,13 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:41b140bbc92b8e16320e1f2b3ccab35b +#> → NCA: module checksum updated:de974a1277edd3bbd54ff63381c9a60f state = sess_res$state # Current active table: res = NCA_fetch_current_obj(state, "table") res$ft -

Time

Analyte

Concentration (ng/mL) by ID

(day)

241

242

243

244

245

246

0

BM_ng_ml

1030

645

845

1120

1460

1290

1

BM_ng_ml

1070

660

853

1210

1470

1400

2

BM_ng_ml

1140

694

872

1380

1510

1630

3

BM_ng_ml

1210

737

898

1570

1560

1870

4

BM_ng_ml

1270

783

927

1750

1610

2090

7

BM_ng_ml

1420

920

1020

2120

1770

2570

0

C_ng_ml

BLQ

BLQ

BLQ

BLQ

BLQ

BLQ

1

C_ng_ml

250

126

72.6

392

50.4

288

2

C_ng_ml

305

199

125

546

84.8

395

3

C_ng_ml

317

245

161

586

109

420

4

C_ng_ml

315

274

184

574

127

410

7

C_ng_ml

291

314

208

463

155

341

+

Time

Analyte

Concentration (ng/mL) by ID

(day)

241

242

243

244

245

246

0

BM_ng_ml

1030

645

845

1120

1460

1290

1

BM_ng_ml

1070

660

853

1210

1470

1400

2

BM_ng_ml

1140

694

872

1380

1510

1630

3

BM_ng_ml

1210

737

898

1570

1560

1870

4

BM_ng_ml

1270

783

927

1750

1610

2090

7

BM_ng_ml

1420

920

1020

2120

1770

2570

0

C_ng_ml

BLQ

BLQ

BLQ

BLQ

BLQ

BLQ

1

C_ng_ml

250

126

72.6

392

50.4

288

2

C_ng_ml

305

199

125

546

84.8

395

3

C_ng_ml

317

245

161

586

109

420

4

C_ng_ml

315

274

184

574

127

410

7

C_ng_ml

291

314

208

463

155

341

# Current active figure: res = NCA_fetch_current_obj(state, "figure") res$ggplot diff --git a/docs/reference/NCA_fetch_ds.html b/docs/reference/NCA_fetch_ds.html index 057fb0e..d7e58e5 100644 --- a/docs/reference/NCA_fetch_ds.html +++ b/docs/reference/NCA_fetch_ds.html @@ -197,7 +197,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:30c54a8ac383f819f700c228944ea99b +#> → NCA: module checksum updated:3887c7c755d4647db2343db080ef3a00 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -247,7 +247,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:7c6fc2331be06942bb372aaa64bbfb49 +#> → NCA: module checksum updated:9174547e2c3a9744d6d787e85c3ac1fe state = sess_res$state myDs = NCA_fetch_ds(state) diff --git a/docs/reference/NCA_fetch_state.html b/docs/reference/NCA_fetch_state.html index ff5889f..ed8cbe7 100644 --- a/docs/reference/NCA_fetch_state.html +++ b/docs/reference/NCA_fetch_state.html @@ -296,7 +296,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:9e0a5a352396df79f922109f5b8b0e0a +#> → NCA: module checksum updated:086d3df5cb825a6f6e3d1b312c03840d #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -346,7 +346,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:55d2211792f2233abc58ac2a34178c8d +#> → NCA: module checksum updated:14e17438cd651732908842ebdae35c5b # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_find_col.html b/docs/reference/NCA_find_col.html index 1e1ee7b..0015c54 100644 --- a/docs/reference/NCA_find_col.html +++ b/docs/reference/NCA_find_col.html @@ -248,7 +248,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:0612a339c46b518b2a200b262162eb12 +#> → NCA: module checksum updated:59d93dd1663ca5a28a0747637cfd03e6 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -298,7 +298,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:72bfaf7f937a352bc05d1b2eeb6816e4 +#> → NCA: module checksum updated:3126fd0e6c650583fd401a84d74684c5 # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_new_ana.html b/docs/reference/NCA_new_ana.html index 4e99c8e..ddc3b79 100644 --- a/docs/reference/NCA_new_ana.html +++ b/docs/reference/NCA_new_ana.html @@ -193,7 +193,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:9fa55195dd239bac31eb14647a870bd6 +#> → NCA: module checksum updated:ec857bd70a3cf7d5c76358fb8f0c5b0d #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -243,7 +243,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:4120f298ee7ccb1bf972737febedc148 +#> → NCA: module checksum updated:cf907dcecce7e32995d7061d565478fa # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_process_current_ana.html b/docs/reference/NCA_process_current_ana.html index 021962b..834d376 100644 --- a/docs/reference/NCA_process_current_ana.html +++ b/docs/reference/NCA_process_current_ana.html @@ -195,7 +195,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:396540a490b188e4c1818d8bf21f9af4 +#> → NCA: module checksum updated:6eee993b0edde4e27fb8896e69f0a819 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -245,7 +245,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:9151eab07ed880fafb4928d72c730773 +#> → NCA: module checksum updated:16161df7faa4a009e54a4c4983872822 # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_set_current_ana.html b/docs/reference/NCA_set_current_ana.html index 42150f5..1822b85 100644 --- a/docs/reference/NCA_set_current_ana.html +++ b/docs/reference/NCA_set_current_ana.html @@ -199,7 +199,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:c183b068c42e76022f25c9fcf75b6f17 +#> → NCA: module checksum updated:1e666f73185e4cb48a84f51e69b1a669 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -249,7 +249,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:35b5c56a3749aa95d1340a1b315945e9 +#> → NCA: module checksum updated:535c7e5626ef026c94411ea75d4f82dd # Extracting the session and input variables session = sess_res$session diff --git a/docs/reference/NCA_test_mksession.html b/docs/reference/NCA_test_mksession.html index 01057d8..a0a350a 100644 --- a/docs/reference/NCA_test_mksession.html +++ b/docs/reference/NCA_test_mksession.html @@ -207,7 +207,7 @@

Examples#> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion -#> → NCA: module checksum updated:3067521d8ab1ab1507c36f821f947bda +#> → NCA: module checksum updated:aa23f6808c6e20a5e350e52b0f059c76 #> → NCA: loading analysis scenario: sd_iv #> Warning: NAs introduced by coercion #> Warning: NAs introduced by coercion @@ -257,7 +257,7 @@

Examples#> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) #> Warning: Too few points for half-life calculation (min.hl.points=3 with only 0 points) -#> → NCA: module checksum updated:2ece283ebfb52b3228892abb93759869 +#> → NCA: module checksum updated:73e037583854bbd71252c6b369c84384