Parameterised reports

PETFit automatically generates HTML reports for every analysis step. These reports are designed for quality control — they contain interactive plots, data summaries, and diagnostic information to help you evaluate your results.

Where reports are saved

Reports are saved in a reports/ subdirectory within your analysis folder:

derivatives/petfit/<analysis_folder>/reports/

Available reports

Step reports

Generated after each pipeline step:

Step

Report file

Contents

Data definition

data_definition_report.html

Data subsetting summary, TAC overview

Weights

weights_report.html

Weights calculation details, per-frame weights plots

Delay fitting

delay_report.html

Delay estimates, blood-tissue alignment plots

Reference TAC

reference_tac_report.html

Reference region fitting, noise comparison

Model reports

Generated after each model fitting step. The template is chosen based on the model type, but the output file is always named by model number:

Model slot

Output file

Model 1

model1_report.html

Model 2

model2_report.html

Model 3

model3_report.html

For example, if you configure 2TCM as Model 1 and Logan as Model 2, PETFit uses 2tcm_report.Rmd to generate model1_report.html and logan_report.Rmd to generate model2_report.html.

Available model templates: 1TCM, 2TCM, 2TCM_irr, Logan, MA1, Patlak, SRTM, SRTM2, refLogan, MRTM1, MRTM2, refPatlak.

Report content

Reports are not just visualisations — they are where the computational work takes place. You can visualise the R code used at each stage of the analysis if you would like to customise the analysis in R.