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hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets
Understanding how the genome is shaped by selective processes forms an integral part of modern biology. However, as genomic datasets continue to grow larger it is becoming increasingly difficult to apply traditional statistics for detecting signatures of selection to these cohorts. There is therefor...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4651233/ https://www.ncbi.nlm.nih.gov/pubmed/26248562 http://dx.doi.org/10.1093/molbev/msv172 |
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author | Maclean, Colin A. Chue Hong, Neil P. Prendergast, James G.D. |
author_facet | Maclean, Colin A. Chue Hong, Neil P. Prendergast, James G.D. |
author_sort | Maclean, Colin A. |
collection | PubMed |
description | Understanding how the genome is shaped by selective processes forms an integral part of modern biology. However, as genomic datasets continue to grow larger it is becoming increasingly difficult to apply traditional statistics for detecting signatures of selection to these cohorts. There is therefore a pressing need for the development of the next generation of computational and analytical tools for detecting signatures of selection in large genomic datasets. Here, we present hapbin, an efficient multithreaded implementation of extended haplotype homzygosity-based statistics for detecting selection, which is up to 3,400 times faster than the current fastest implementations of these algorithms. |
format | Online Article Text |
id | pubmed-4651233 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-46512332015-11-25 hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets Maclean, Colin A. Chue Hong, Neil P. Prendergast, James G.D. Mol Biol Evol Resources Understanding how the genome is shaped by selective processes forms an integral part of modern biology. However, as genomic datasets continue to grow larger it is becoming increasingly difficult to apply traditional statistics for detecting signatures of selection to these cohorts. There is therefore a pressing need for the development of the next generation of computational and analytical tools for detecting signatures of selection in large genomic datasets. Here, we present hapbin, an efficient multithreaded implementation of extended haplotype homzygosity-based statistics for detecting selection, which is up to 3,400 times faster than the current fastest implementations of these algorithms. Oxford University Press 2015-11 2015-08-06 /pmc/articles/PMC4651233/ /pubmed/26248562 http://dx.doi.org/10.1093/molbev/msv172 Text en © The Author 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Resources Maclean, Colin A. Chue Hong, Neil P. Prendergast, James G.D. hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets |
title | hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets |
title_full | hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets |
title_fullStr | hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets |
title_full_unstemmed | hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets |
title_short | hapbin: An Efficient Program for Performing Haplotype-Based Scans for Positive Selection in Large Genomic Datasets |
title_sort | hapbin: an efficient program for performing haplotype-based scans for positive selection in large genomic datasets |
topic | Resources |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4651233/ https://www.ncbi.nlm.nih.gov/pubmed/26248562 http://dx.doi.org/10.1093/molbev/msv172 |
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