sponge_data: Sponge _A. aerophoba_ study
In EvaYiwenWang/PLSDAbatch: PLSDA-batch
sponge_data R Documentation
Sponge A. aerophoba study
Description
This study investigated the relationship between metabolite concentration
and microbial abundance of specific sponge tissues. The samples were
collected from two types of tissues (Ectosome vs. Choanosome) and processed
on two separate denaturing gradient gels in electrophoresis. This study
includes relative abundance data only and a completely balanced
batch x treatment design.
Usage
data('sponge_data')
Format
A TreeSummarizedExperiment object containing the relative
abundance (Tss_value) and centered log ratio transformed values (Clr_value)
of 32 samples and 24 OTUs. The rowData includes Y.trt and
Y.bat. Y.trt is the effect of interest, which is a factor of
sponge tissues for each sample in the sponge study; Y.bat is the
batch effect, which is a factor of electrophoresis gels where each sample
processed. The rowTree is built based on the Y.bat.
Value
None.
Source
The raw data were downloaded from the referenced article. Filtering
and normalisation described in
https://evayiwenwang.github.io/PLSDAbatch_workflow/.
References
\insertRefsacristan2011exploringPLSDAbatch
EvaYiwenWang/PLSDAbatch documentation built on Sept. 25, 2024, 8:54 p.m.
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| sponge_data | R Documentation |
Sponge A. aerophoba study
Description
This study investigated the relationship between metabolite concentration and microbial abundance of specific sponge tissues. The samples were collected from two types of tissues (Ectosome vs. Choanosome) and processed on two separate denaturing gradient gels in electrophoresis. This study includes relative abundance data only and a completely balanced batch x treatment design.
Usage
data('sponge_data')
Format
A TreeSummarizedExperiment object containing the relative
abundance (Tss_value) and centered log ratio transformed values (Clr_value)
of 32 samples and 24 OTUs. The rowData includes Y.trt and
Y.bat. Y.trt is the effect of interest, which is a factor of
sponge tissues for each sample in the sponge study; Y.bat is the
batch effect, which is a factor of electrophoresis gels where each sample
processed. The rowTree is built based on the Y.bat.
Value
None.
Source
The raw data were downloaded from the referenced article. Filtering and normalisation described in https://evayiwenwang.github.io/PLSDAbatch_workflow/.
References
\insertRefsacristan2011exploringPLSDAbatch
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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