Phylo_Forge is a web application allowing to analyse fastq amplicon sequences of the 16S rRNA gene using the DADA2 analytical pipeline developed by Dr. Benjamin CALLAHAN. The application will provide a phyloseq object along with the ability to export all associated parameters used for its creation. The phyloseq object can be further analyzed in our in house developed PhyloIgSeq application. Of note, Phylo_Forge is made to provide an analysis of 16S rRNA gene sequencing data along with a report that enables reproducing the analysis. In this respect we have aimed to follow the FAIR principles to faciliate downstream publication.
The Phylo_Forge application requires an excel file including two excel sheets: 1) FASTQs and 2) Metadata (in that order). (download example)
The FASTQs sheet should have the following columns (and no other): "Sample_ID", "Strand_nature", "File_name", "File_path".
The Metadata sheet should have the following columns (more can be added depending on the metadata to be included in the final ps object): "Sample_ID"
Of note, this app is only available locally. However, you can use our Phylo_Forge_Script app that allows you to create an R object, that enables you to run the full analysis as a script on your own local server.
Phylo_Forge (full screen version, local)
Phylo_Forge (full screen version, alternative)
Application authors: Julia ADELLE & Martin LARSEN
Application presentation by Julia ADELLE:
Web server administrator: Paul CASSAN