stratag: An r package for manipulating, summarizing and analysing population genetic data

Archer, Frederick I.; Adams, Paula E.; Schneiders, Brita B.

doi:10.1111/1755-0998.12559

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The NOAA IR serves as an archival repository of NOAA-published products including scientific findings, journal articles, guidelines, recommendations, or other information authored or co-authored by NOAA or funded partners. As a repository, the NOAA IR retains documents in their original published format to ensure public access to scientific information.

i

stratag: An r package for manipulating, summarizing and analysing population genetic data

2016
By Archer, Frederick I. ; Adams, Paula E. ; Schneiders, Brita B.
Source: Molecular Ecology Resources, 17(1), 5-11

[PDF-424.40 KB]

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Details:

Journal Title:

Molecular Ecology Resources
Personal Author:

Archer, Frederick I. ; Adams, Paula E. ; Schneiders, Brita B.

Archer, Frederick I. ; Adams, Paula E. ; Schneiders, Brita B. Less -
NOAA Program & Office:

NMFS (National Marine Fisheries Service) ; SWFSC (Southwest Fisheries Science Center)

NMFS (National Marine Fisheries Service) ; SWFSC (Southwest Fisheries Science Center) Less -
Description:

We introduce the r package stratag as a user‐friendly population genetics toolkit. stratag provides easy access to a suite of standard genetic summaries as well as the ability to rapidly manipulate stratified genetic data for custom analyses. Tests of population subdivision with most common measures of population subdivision (e.g., FST, GST, ΦST, Χ2) can be conducted within a single function. The package also provides wrapper functions that allow users to configure and run popular external programs such as genepop, structure, and fastsimcoal from within r, and smoothly interface with popular r packages adegenet and pegas. stratag is intended to be an open‐source dynamic package that will grow with future needs and user input.
Keywords:

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Biotechnology Ecology, Evolution, Behavior And Systematics Genetics
Source:

Molecular Ecology Resources, 17(1), 5-11
DOI:

https://doi.org/10.1111/1755-0998.12559
ISSN:

1755-098X;1755-0998;
Format:

PDF
Publisher:

Wiley
Document Type:

Journal Article
Rights Information:

Accepted Manuscript
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Library
Main Document Checksum:

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urn:sha-512:b969078172ff74f944a90a5de1d5151d520959d252cdeae1183d10ef6eb5ab1704e3a5f5b660849d5a80bd9a979da1dd16b96ee3f3a770e6d552fd1114d52aa4
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https://repository.library.noaa.gov/view/noaa/63020/noaa_63020_DS1.pdf
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