lf_to_tdf

This function transforms a data frame from LF (long format) to TDF (table
format),performing various data manipulation steps such as spreading data
across columns,removing NA and/or 0 columns, merging ID allele heights
within each replicate,transposing the table, converting from character to
numeric class, and replacing empty data with "0".

Analyzing genetic data obtained from pooled samples.
This package can read in Fragment Analysis output files, process the data,
and score peaks, as well as facilitate various analyses, including cluster
analysis, calculation of genetic distances and diversity indices,
as well as bootstrap resampling for statistical inference. Specifically
tailored to handle genetic data efficiently, researchers can explore
population structure, genetic differentiation, and genetic relatedness
among samples. We updated some functions from Covarrubias-Pazaran et al.
(2016) <doi:10.1186/s12863-016-0365-6> to allow for the use of new file formats
and referenced the following to write our genetic analysis functions:
Long et al. (2022) <doi:10.1038/s41598-022-04776-0>, Jost (2008)
<doi:10.1111/j.1365-294x.2008.03887.x>, Nei (1973)
<doi:10.1073/pnas.70.12.3321>, Foulley et al. (2006)
<doi:10.1016/j.livprodsci.2005.10.021>, Chao et al. (2008)
<doi:10.1111/j.1541-0420.2008.01010.x>.

Kathleen Kuesters

pooledpeaks

Genetic Analysis of Pooled Samples

Jeffrey Long

Jessica Blanton

Walter Blank

Jeffrey Kovach

Ronald Blanton

lf_to_tdf function

<dl><dt>x</dt>
<dd>A data frame in LF format ideally coming out of the clean_scores
function.</dd></dl>

Arguments

Transform LF to TDF — lf_to_tdf

<dl>

<dt>x</dt>
<dd>A data frame in LF format ideally coming out of the clean_scores
function.</dd>

</dl>

lf_to_tdf: Transform LF to TDF

Description

Usage

Value

Arguments

Examples