IBD: An example dataset
In yli1992/BOUTH: Bottom-up Tree Hypothesis Tests
Description
Usage
Format
References
Examples
Description
A real data example from a study on human gut microbiome and
inflammatory bowel disease (IBD). The preprocessing was performed on
the online platform QIITA (https://qiita.ucsd.edu).
Usage
1
Format
- tax.table
A 2360 by 8 data frame that gives taxomonic assignment to
2360 operational taxonomic units (OTUs) from 8 levels, which from the
top to bottom are kingdom, phylum, class, order, family, genus, species, and OTUs.
The value ‘unknown’ indicates missing assignment at some levels.
- pvalue.otus
A vector of p-values for testing the differential
abundance of each of the 2360 OTUs between the ulcerative colitis (UC)
and control groups.
References
Halfvarson, J, et al. "Dynamics of the human gut microbiome
in inflammatory bowel disease." Nature microbiology 2.5 (2017): 17004.
Examples
1
yli1992/BOUTH documentation built on Sept. 14, 2020, 3:18 a.m.
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Description Usage Format References Examples
Description
A real data example from a study on human gut microbiome and inflammatory bowel disease (IBD). The preprocessing was performed on the online platform QIITA (https://qiita.ucsd.edu).
Usage
1 |
Format
- tax.table
A 2360 by 8 data frame that gives taxomonic assignment to 2360 operational taxonomic units (OTUs) from 8 levels, which from the top to bottom are kingdom, phylum, class, order, family, genus, species, and OTUs. The value ‘unknown’ indicates missing assignment at some levels.
- pvalue.otus
A vector of p-values for testing the differential abundance of each of the 2360 OTUs between the ulcerative colitis (UC) and control groups.
References
Halfvarson, J, et al. "Dynamics of the human gut microbiome in inflammatory bowel disease." Nature microbiology 2.5 (2017): 17004.
Examples
1 |
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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