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tmbLab

Calibration for a specific laboratory’s panel-based TMB diagnostic assay.

Calibration for a specific laboratory’s panel-based TMB diagnostic assay. Each plotted point represents WES TMB (x) and Panel TMB (y) for a particular sample in the training data set. The solid black line is the fitted weighted least squares regression line, and the dotted black lines are the corresponding 95% prediction limits. The value y0 is a hypothetical TMB value measured using the panel assay of interest. The WES-calibrated estimate for y0 is depicted by x0 on the x-axis. The interval of uncertainty around the WES-calibrated value, (LL95(y0), UL95(y0)), is indicated on the x-axis.

FOCR/NCI TMB Calibration Tool: tmbLab

Lisa McShane, Laura Yee, and Qian Xie

This package generates and applies a calibration model as described in phase 2 of the Friends of Cancer Research (FOCR) tumor mutational burden (TMB) harmonization project. The software estimates a calibration curve with corresponding prediction limits to quantify the average relationship between WES and panel TMB assay values as well as variability around that curve. Intervals of uncertainty are also provided to accompany the corresponding WES-calibrated TMB values.

Download the software

tmbLab_1.0.0.zip (Windows OS)

tmbLab_1.0.0.tar.gz (Source)

Vignettes

tmbLab Vignettes

Support

TMB.Project.Support@mail.nih.gov

Selected Reference

  1. Vega DM, Yee LM, McShane LM, et al. Aligning Tumor Mutational Burden (TMB) quantification across diagnostic platforms: Phase 2 of the Friends of Cancer Research TMB Harmonization Project. Annals of Oncology 2021. https://www.sciencedirect.com/science/article/pii/S0923753421044951

    [PubMed Abstract]

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