AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic

KerryOdair

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Join Date: Sep 2010

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AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic

02-18-2013, 11:22 AM

AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic applications.

The software AMY-Tree (inclusive the WHY-program and the user manual) is freely available on the website bio.kuleuven.be/de/dev (it will be online as soon as the manuscript is accepted). On this website, at least every six months (unless no new data has appeared), an update will be given of the SNP conversion file and of the Updated Y chromosomal phylogenetic tree in tab separated value format based on scientific publications.

Link to provisional PDF:

http://www.biomedcentral.com/content/pdf/1471-2164-14-101.pdf

FullGenomes Kit 045DV YFull Terminal SNP Y2846 FTDNA Kit 52277 M35>V12>CTS693>CTS3346>Y2877>CTS6667>CTS8411>Y2846 MTdna U4b1a3a
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vivek_

PhD Student

Join Date: Jul 2012

Posts: 164
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11-25-2013, 09:15 AM

I tried using this software on some exome data and it appears to be really slow and memory hogging.

I'd like to know if I can obtain the Y chromosome mutations listed by haplogroup in a machine parse-able format so I can check to see if I can develop a tool with a similar functionality.
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AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic

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