MoPPro: Estimation of metabolic profile(s) based on Taxy-Pro...
In nick-youngblut/Tax4Fun: Prediction of functional profiles from metagenomic 16S rRNA data
Description
Usage
Arguments
Details
Value
Author(s)
References
Description
Estimation of metabolic profile(s) based on Taxy-Pro predictions from whole metagenome shotgun data
Usage
1
MoPPro(MoPProInput, folderReferenceData)
Arguments
MoPProInput
(required): list containing the taxonomic profile and sample name(s), e.g. imported with the function importTaxyProData.
folderReferenceData
(required): a character vector with one character string indicating the folder location of the unzipped reference data.
Details
MoP-Pro, a mixture model-based approach for the estimation of pathway abundances, provides a basis for statistical interpretation and fast computation of metabolic profiles of metagenomes.
To overcome computationally intense homology searches, MoP-Pro implements a shortcut to estimate the metabolic profile of a metagenome.
The taxonomic profile of the metagenome is linked to a set of pre-computed metabolic reference profiles.
The combination of the taxonomic abundance estimates, obtained through the fast method Taxy-Pro, and the
metabolic reference profiles, based on the KEGG database, achieves an unrivaled speed of the metabolic profiling approach.
Value
A vector/matrix containing the estimated metabolic profile(s)
Author(s)
Kathrin P. Asshauer kathrin@gobics.de
References
http://drops.dagstuhl.de/opus/volltexte/2013/4238/pdf/p001-asshauer.pdf
nick-youngblut/Tax4Fun documentation built on July 14, 2019, 9:32 p.m.
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Description Usage Arguments Details Value Author(s) References
Description
Estimation of metabolic profile(s) based on Taxy-Pro predictions from whole metagenome shotgun data
Usage
1 | MoPPro(MoPProInput, folderReferenceData)
|
Arguments
MoPProInput |
(required): list containing the taxonomic profile and sample name(s), e.g. imported with the function |
folderReferenceData |
(required): a character vector with one character string indicating the folder location of the unzipped reference data. |
Details
MoP-Pro, a mixture model-based approach for the estimation of pathway abundances, provides a basis for statistical interpretation and fast computation of metabolic profiles of metagenomes. To overcome computationally intense homology searches, MoP-Pro implements a shortcut to estimate the metabolic profile of a metagenome. The taxonomic profile of the metagenome is linked to a set of pre-computed metabolic reference profiles. The combination of the taxonomic abundance estimates, obtained through the fast method Taxy-Pro, and the metabolic reference profiles, based on the KEGG database, achieves an unrivaled speed of the metabolic profiling approach.
Value
A vector/matrix containing the estimated metabolic profile(s)
Author(s)
Kathrin P. Asshauer kathrin@gobics.de
References
http://drops.dagstuhl.de/opus/volltexte/2013/4238/pdf/p001-asshauer.pdf
R Package Documentation
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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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