Expanding the UniFrac Toolbox.
The UniFrac distance metric is often used to separate groups in microbiome analysis, but requires a constant sequencing depth to work properly. Here we demonstrate that unweighted UniFrac is highly sensitive to rarefaction instance and to sequencing depth in uniform data sets with no clear structure...
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2016-01-01
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doaj-00e8b6135fcf4c9bac2122c4754202482020-11-25T01:38:00ZengPublic Library of Science (PLoS)PLoS ONE1932-62032016-01-01119e016119610.1371/journal.pone.0161196Expanding the UniFrac Toolbox.Ruth G WongJia R WuGregory B GloorThe UniFrac distance metric is often used to separate groups in microbiome analysis, but requires a constant sequencing depth to work properly. Here we demonstrate that unweighted UniFrac is highly sensitive to rarefaction instance and to sequencing depth in uniform data sets with no clear structure or separation between groups. We show that this arises because of subcompositional effects. We introduce information UniFrac and ratio UniFrac, two new weightings that are not as sensitive to rarefaction and allow greater separation of outliers than classic unweighted and weighted UniFrac. With this expansion of the UniFrac toolbox, we hope to empower researchers to extract more varied information from their data.http://europepmc.org/articles/PMC5025018?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Ruth G Wong Jia R Wu Gregory B Gloor |
spellingShingle |
Ruth G Wong Jia R Wu Gregory B Gloor Expanding the UniFrac Toolbox. PLoS ONE |
author_facet |
Ruth G Wong Jia R Wu Gregory B Gloor |
author_sort |
Ruth G Wong |
title |
Expanding the UniFrac Toolbox. |
title_short |
Expanding the UniFrac Toolbox. |
title_full |
Expanding the UniFrac Toolbox. |
title_fullStr |
Expanding the UniFrac Toolbox. |
title_full_unstemmed |
Expanding the UniFrac Toolbox. |
title_sort |
expanding the unifrac toolbox. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS ONE |
issn |
1932-6203 |
publishDate |
2016-01-01 |
description |
The UniFrac distance metric is often used to separate groups in microbiome analysis, but requires a constant sequencing depth to work properly. Here we demonstrate that unweighted UniFrac is highly sensitive to rarefaction instance and to sequencing depth in uniform data sets with no clear structure or separation between groups. We show that this arises because of subcompositional effects. We introduce information UniFrac and ratio UniFrac, two new weightings that are not as sensitive to rarefaction and allow greater separation of outliers than classic unweighted and weighted UniFrac. With this expansion of the UniFrac toolbox, we hope to empower researchers to extract more varied information from their data. |
url |
http://europepmc.org/articles/PMC5025018?pdf=render |
work_keys_str_mv |
AT ruthgwong expandingtheunifractoolbox AT jiarwu expandingtheunifractoolbox AT gregorybgloor expandingtheunifractoolbox |
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