freqpcr
Posted on 2021-01-18 - 10:08 authored by Masaaki Sudo
<p>The R package 'freqpcr' (Sudo and Osakabe in prep.) (https://github.com/sudoms/freqpcr) provides a procedure for interval estimation of the population allele frequency from qPCR analysis based
on the restriction enzyme digestion (RED)-DeltaDeltaCq method (Osakabe et al.
2017) as well as general DeltaDeltaCq analysis. Compatible with the Cq
measurement on DNA extract from multiple individuals at once, so called
``group-testing.'' The model assumes the quantity of DNA extracted from an
individual organism to follow a gamma distribution, thereby the point estimate
is robust to the uncertainty of DNA yield.</p><p>The collection on figshare.com includes the estimation results of freqpcr() in the numerical experiment in order to assess the estimation accuracy. The experimental procedure will be published as the supplementary materials of the article (Sudo and Osakabe in prep.) (publication information is added here).</p>
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Sudo, Masaaki (2021). freqpcr. figshare. Collection. https://doi.org/10.6084/m9.figshare.c.5258027.v1
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FUNDING
The work was supported by a grant from the Ministry of Agriculture, Forestry, and Fisheries of Japan (Genomics-based Technology for Agricultural Improvement): PRM05 to MO and PRM07 to MS.
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