This package allows you to store, handle, and analyz high-throughput p hylogenic sequencing data in different phylogenic level. The the core component of this package includes two S4 classes.
The SummarizedPhyloseq was built based on the phyloseq class from the phyloseq package. It inherits from the phyloseq class. Not only it contains all the slots in phyloseq, but also it has 7 new slots as the summarized otu table on the level of from species to kingdom. Differential abundance test can then be applied to the SummarizedPhyloseq on each phyloseq level, and the results are stored in the SummarizedPhyloStats class.
Chenghao Zhu [email protected]
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