Package index • TMAtools

Main function

Main function which runs the entire TMAtools pipeline.

tmatools(): TMAtools pipeline

Individual steps

Each major step in the TMAtools pipeline.

combine_tma_spreadsheets(): Combine TMA spreadsheets
deconvolute(): Deconvolute a combined TMA spreadsheet
translate_scores(): Translate biomarker scores from a deconvoluted TMA spreadsheet.
consolidate_scores(): Consolidate biomarkers from a translated TMA spreadsheet.

Post-consolidation analysis

Functions for downstream analysis of consolidated TMA data.

assess_mmr_status(): Assess MMR status based on IHC biomarker scores