GFToolkit mines a proteome for a gene family of interest with HMMER, then runs gene tree, synteny, promoter, and copy-number analyses end to end. GFPlatform wraps it in a secure, multi-user dashboard — sign in, run your analyses, and keep every result in your own workspace.
Starting from a PFam domain model and a species proteome, GFToolkit standardizes every step of a genome-wide gene family study — and GFPlatform adds the account, workspace, and job tracking around it.
Identifies gene family members using HMMER with a raw PFam model, then builds a species-specific adjusted model to capture additional members.
Infers gene trees with IQ-TREE 2, supporting multiple aligners (MAFFT, Clustal Omega, MUSCLE) and optional bootstrapping.
Detects tandem and segmental duplications via MCScanX, computes Ka/Ks ratios, and generates circos-style synteny plots.
Runs MEME for de novo motifs, extracts promoters, and tests transcription-factor enrichment with FIMO/AME against JASPAR.
Composite gene tree plots with domain architecture, gene structure, motifs, physicochemical properties, and a compiled summary report.
Every account gets a private output directory. You can only browse the shared genome library and your own files — never anyone else's.