FunVIP

FunVIP automates a nine-step phylogeny-based workflow for fungal validation and identification from public sequence databases, addressing mislabeled taxonomic data through integrated phylogenetic analysis.

Key Features:

• Automated Nine-Step Workflow: FunVIP executes input management, sequence-set organization, alignment, trimming, concatenation, model selection, tree inference, tree interpretation, and report generation in a single command.
• Phylogeny-Based Identification with Validation: FunVIP achieves identification using only a query, database, and single command, with results supported by phylogenetic tree evidence.
• Conflict and Issue Detection: FunVIP generates reports of conflicts and issues detected at multiple checkpoints during analysis.
• Performance Benchmarking: FunVIP was validated against BLAST and q2-feature-classifier using mass double-revised fungal datasets including Fuscoporia, Sanghuangporus, and Aspergillus section Terrei.

Scientific Applications:

• Fungal Species Identification: FunVIP enables accurate DNA sequence-based identification of fungi for industrial, clinical, and edible mushroom applications.
• Validation of Mislabeled Database Sequences: FunVIP re-iterates manual revision processes to detect and resolve mislabeled sequences in public nucleotide databases.
• Phylogenetic Evidence Generation: FunVIP produces phylogenetic trees as supporting evidence for taxonomic assignments.

Methodology:

FunVIP employs phylogeny-based identification with validation using input management, sequence-set organization, alignment, trimming, concatenation, model selection, tree inference, tree interpretation, and report generation.