AGILE: an assembled genome mining pipeline
We present an Assembled-Genome mInig pipeLinE (AGILE) written in Perl that combines bioinformatics tools with a number of steps to overcome the limitations imposed by such assemblies when applied to highly fragmented genomes. Our methodology uses user specified query genes from a closely related species to mine and annotate coding sequences that would traditionally be missed by standard annotation packages. Despite a focus on mammalian genomes, the generalized implementation means that it may be applied to any genome assembly, providing a means for non-specialists to gather gene sequences for downstream analyses.See it on Scoop.it, via Viruses, Immunology & Bioinformatics from Virology.uvic.ca
AGILE: an assembled genome mining pipeline
Source: Viral Bioinformatics
