Abstract：
:High-throughput sequencing has changed many aspects of population genetics, molecular ecology and related fields, affecting both experimental design and data analysis. The software package angsd allows users to perform a number of population genetic analyses on high-throughput sequencing data. angsd uses probabilistic approaches which can directly make use of genotype likelihoods; thus, SNP calling is not required for comparative analyses. This takes advantage of all the sequencing data and produces more accurate results for samples with low sequencing depth. Here, we present angsd-wrapper, a set of wrapper scripts that provides a user-friendly interface for running angsd and visualizing results. angsd-wrapper supports multiple types of analyses including estimates of nucleotide sequence diversity neutrality tests, principal component analysis, estimation of admixture proportions for individual samples and calculation of statistics that quantify recent introgression. angsd-wrapper also provides interactive graphing of angsd results to enhance data exploration. We demonstrate the usefulness of angsd-wrapper by analysing resequencing data from populations of wild and domesticated Zea. angsd-wrapper is freely available from https://github.com/mojaveazure/angsd-wrapper.
journal_name
Mol Ecol Resourjournal_title
Molecular ecology resourcesauthors
Durvasula A,Hoffman PJ,Kent TV,Liu C,Kono TJ,Morrell PL,Ross-Ibarra Jdoi
10.1111/1755-0998.12578subject
Has Abstractpub_date
2016-11-01 00:00:00pages
1449-1454issue
6eissn
1755-098Xissn
1755-0998journal_volume
16pub_type
杂志文章abstract：:New DNA sequencing technologies are allowing researchers to explore the genomes of the millions of natural history specimens collected prior to the molecular era. Yet, we know little about how well specific next-generation sequencing (NGS) techniques work with the degraded DNA typically extracted from museum specimens...
journal_title：Molecular ecology resources
pub_type： 杂志文章
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journal_title：Molecular ecology resources
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journal_title：Molecular ecology resources
pub_type： 杂志文章
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pub_type： 杂志文章
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journal_title：Molecular ecology resources
pub_type： 杂志文章
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journal_title：Molecular ecology resources
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journal_title：Molecular ecology resources
pub_type： 杂志文章
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更新日期：2021-01-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
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更新日期：2017-07-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/1755-0998.12080
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pub_type： 杂志文章
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更新日期：2008-11-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/j.1755-0998.2011.03017.x
更新日期：2011-09-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/j.1755-0998.2009.02750.x
更新日期：2010-03-01 00:00:00
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pub_type： 杂志文章
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更新日期：2009-11-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/1755-0998.12945
更新日期：2019-01-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/j.1755-0998.2011.02977.x
更新日期：2011-03-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/j.1755-0998.2009.02628.x
更新日期：2009-05-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
doi：10.1111/j.1755-0998.2008.02277.x
更新日期：2008-11-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章,评审
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更新日期：2011-05-01 00:00:00
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journal_title：Molecular ecology resources
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更新日期：2008-01-01 00:00:00
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更新日期：2008-03-01 00:00:00
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journal_title：Molecular ecology resources
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更新日期：2009-01-01 00:00:00
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journal_title：Molecular ecology resources
pub_type： 杂志文章
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更新日期：2019-03-01 00:00:00
