usnistgov / bias-uq-pcr

Software and Data associated with "Reducing Bias and Quantifying Uncertainty in Fluorescence Produced by PCR''

Overview

The purpose of this code and data is to enable reproduction and facilitate extension of the computational results associated with Ref. [1].

Installation, Testing, and Reproduction of Manuscript

Python can be obtained at Python.org. The dependencies required can be installed via

pip install -r requirements.txt

To test the installation, navigate to the parent directory and invoke

python3 -m pytest --doctest-modules

For step-by-step instructions on reproducing the manuscript, run

python plot_figures.py

(also see here).

Experimental Data

The raw data can be found in the directory data/.

Documentation

The documentation can be compiled using sphinx in doc/. A pdf version of the documentation is available here.

Citing This Work

To cite the manuscript, use Ref. [1]. To cite the software or experimental data, use Ref. [2].

References

1. DeJaco, R. F.; Roberts, M. J.; Romsos, E. L.; Vallone, P. M.; Kearsley, A. J. Reducing Bias and Quantifying Uncertainty in Fluorescence Produced by PCR, Bulletin of Mathematical Biology, 2023, doi: 10.1007/s11538-023-01182-z.

2. DeJaco, R. F. Software and Data associated with ``Reducing Bias and Quantifying Uncertainty in Fluorescence Produced by PCR,'' National Institute of Standards and Technology, 2023, doi: 10.18434/mds2-2910.