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Functional profile prediction software tools | 16S ribosomal RNA sequencing data analysis

Profiling phylogenetic marker genes, such as the 16S rRNA gene, is a key tool for studies of microbial communities but does not provide direct evidence of a community's functional capabilities.Source text:(Langille et al., 2013) Predictive…
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Vikodak
Web

Vikodak

A multi-modular package that is based on the above assumption and automates…

A multi-modular package that is based on the above assumption and automates inferring and/ or comparing the functional characteristics of an environment using taxonomic abundance generated from one…

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PICRUSt
Desktop
Web
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Themetagenomics
Desktop

Themetagenomics

Provides a topic model framework for microbiome abundance data, as well as…

Provides a topic model framework for microbiome abundance data, as well as prediction for 16S rRNA survey data. Themetagenomics is a package that offers an R implementation of PICRUSt and wraps…

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BioAtlas
Web

BioAtlas

Utilizes 16S rRNA sequencing data for geo-profiling. BioAtlas is a web…

Utilizes 16S rRNA sequencing data for geo-profiling. BioAtlas is a web visualisation application that supports two types of maps, namely geographical world maps and host-attached maps of, for…

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Tax4Fun
Desktop

Tax4Fun

A software package that predicts the functional capabilities of microbial…

A software package that predicts the functional capabilities of microbial communities based on 16S rRNA datasets. Tax4Fun provides a good approximation to functional profiles obtained from…

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PAPRICA
Desktop

PAPRICA PAthway PRediction by phylogenetIC plAcement

Conducts metabolic inference on (preferably, but not exclusively, NGS) 16S rRNA…

Conducts metabolic inference on (preferably, but not exclusively, NGS) 16S rRNA gene libraries. Instead of using an OTU based approach, however, PAPRICA uses a phylogenetic placement approach. This…

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Phoenix
Desktop

Phoenix

Processes large-scale datasets consisting of more than one hundred…

Processes large-scale datasets consisting of more than one hundred environmental samples and containing more than one million reads collectively. Phoenix 2 is a generic ribosomal RNA gene sequence…

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