Issue

Closes #1343

Description

Expands the TLG catalog with new table, graph, and listing functions for PK reports, following the insightsengineering TLG catalog specifications.

New TLG functions (26 new entries in tlg.yaml):

• Tables (9): t_pkct01 (summary concentration table with 4 variants: by TRT, by dose, TAD, dose+TAD), t_pkpt03_col (summary PK parameters), t_pkpt03_MP_col (metabolite/parent ratios), t_pkpt07_norm (dose-normalized parameters), t_pkpt08_uri (urine amount/percent recovered), t_pkpt11_gmr (geometric mean ratio with CIs)
• Graphs (12): g_pkcg01/02/03_sbs (side-by-side concentration plots), p_pkcg03_lin/log/sbs_dose (mean concentration by dose), p_pkpg01_cum/per (urine recovery profiles), p_pkpg02_doseprop (dose-proportionality scatter with power-model regression), p_pkpg03_boxp / p_pkpg04_boxp (PK parameter boxplots), p_pkpg06_mp (metabolite/parent ratio boxplots)
• Listings (5): l_pkcl01_tad (concentration listing by TAD), l_pkcl02_uri (urine concentration listing), l_pkpl01 (individual PK parameters), l_pkpl01_mp (metabolite ratios), l_pkpl04_mp (treatment comparison)

Shared helpers (R/utils-tlg.R):

• split_and_apply — splits data by grouping variables and applies a function to each subset (used by all new TLG functions)
• filter_metabolite_rows — three-tier metabolite detection fallback (METABFL → PPCAT → PARAM)
• .summarise_adpp — descriptive statistics for PK parameter values (n, Mean, SD, CV%, GeoMean, GeoCV%, Median, Min, Max)
• .build_pkpp_table — deduplicates ADPP rows and applies summary statistics per stratum/parameter
• .get_var_label — label attribute lookup with column-name fallback

Shiny wiring improvements:

• Added type = "table" support to tlg_module_server / tlg_module_ui (tables render via reactable)
• ADPP data now flows from tab_nca_server → tab_tlg_server → modules via a dedicated adpp reactive, avoiding recomputation
• filter_tlg_excluded applied once at the tab_tlg boundary (not per-module), and extended to handle ADPP's PPSUMFL flag alongside ADNCA's PKSUM1F
• Fixed NA handling in filter_tlg_excluded — rows with NA in exclusion flag columns were silently dropped; now correctly preserved
• Replaced random module ID suffixes with deterministic IDs + a registration environment to prevent duplicate Shiny observer accumulation on re-submit
• Extracted .build_tlg_panels helper to eliminate copy-paste across table/graph/listing renderUI blocks

Other changes:

• export_cdisc: carries DOSEA/DOSEU columns through to ADPP for dose-proportionality TLGs
• Fixed g_pkcg02_sbs YAML entry pointing to g_pkcg02_log instead of g_pkcg02_sbs
• Removed stray print(tlg_order()) debug statement in tab_tlg.R

Definition of Done

• List of proposed new TLGs discussed and agreed
• New graph functions implemented and registered in tlg.yaml
• New table functions implemented and registered in tlg.yaml
• Each new function has unit tests
• All new TLGs render correctly in the app

How to test

1. Run NCA on a dataset that includes multiple treatment arms and at least one analyte
2. Navigate to the TLG tab, the new Tables sub-tab should be functional (previously a placeholder)
3. Submit the default TLG selection and verify tables render as reactable widgets with pagination
4. Enable non-default entries (dose-proportionality, urine, GMR, boxplots) and verify they render without error
5. For ADPP-based TLGs: confirm that data reflects the NCA results (not stale or recomputed)
6. Re-submit the TLG order multiple times, verify no duplicate observer accumulation (pagination buttons should fire exactly once per click)
7. For urine TLGs (t_pkpt08_uri, p_pkpg01_cum/per, l_pkcl02_uri): test with a dataset containing urine specimens; verify the condition: "URINE" auto-selects these entries when urine data is present (don't forget to click urine in NCA set-up tab like me :'))

Contributor checklist

• Code passes lintr checks
• Code passes all unit tests
• New logic covered by unit tests
• New logic is documented
• App or package changes are reflected in NEWS
• Package version is incremented
• R script works with the new implementation (if applicable)
• Settings upload works with the new implementation (if applicable)
• If any .scss change was done, run data-raw/compile_css.R
• If a package dependency was added/changed, run data-raw/test_suggests_hidden.R

Notes to reviewer

• All new graph functions use direct ggplot2 (no tern dependency), per Enhancement: Remove tern dependency from TLG plots #1319.
• The t_pkct01 summary function has its own .summarise_group rather than reusing .summarise_adpp. This is intentional because concentration tables have BLQ-specific semantics (BLQ counting, different n definition that includes BLQ subjects) that don't map cleanly to the ADPP helper.
• The condition auto-selection for ADPP-based TLGs (e.g. t_pkpt08_uri with condition: "URINE") evaluates against ADNCA's PCSPEC column, not ADPP's PPSPEC. This works in practice (if ADNCA has urine specimens, ADPP should too) but could be tightened in a follow-up if needed.
• The DOSEA column is now carried through export_cdisc for dose-proportionality graphs (p_pkpg02_doseprop, p_pkcg03_*_dose). If DOSEA is absent from the source data, these TLGs will show an error message at render time (caught by tryCatch in tlg_module_server). They are all is_default: false so they won't be pre-selected.