Team I Functional Annotation Group

Introduction

Background

Functional annotation is the process of locating genes and identifying their functions (biochemical functions, regulatory functions, etc.) in the genome.

Objective

• Fully annotate 258 genomes from Gene Prediction group, focusing on antibiotic resistance
• Provide Comparative Genomics group with data required to perform Genome Wide Association Study(GWAS)

Tools

Prokka

Command:

prokka --outdir <output_directory> --kingdom <species' kingdom> --genus <species' genus> --gram <> --prefix <output_file> --rfam --rnammer <input_file> 

Runtime: ~ 16mins /genome

Eggnog

LipoP Command:

LipoP -<output_format> -<input_file> <output_file>

Runtime: ~2mins /genome

TMHMM Command:

tmhmm -<output_format> -<input_file> <output_file>

Runtime: ~6mins /genome

SignalP Command:

signalp -t <organism_type> -f <output_format> <input_file>

Runtime: ~ 4mins /genome