Abstract
The DOE-JGI Microbial Annotation Pipeline (DOE-JGI MAP) supports gene prediction and/or functional annotation of microbial genomes towards comparative analysis with the Integrated Microbial Genome (IMG) system. DOE-JGI MAP annotation is applied on nucleotide sequence datasets included in the IMG-ER (Expert Review) version of IMG via the IMG ER submission site. Users can submit the sequence datasets consisting of one or more contigs in a multi-fasta file. DOE-JGI MAP annotation includes prediction of protein coding and RNA genes, as well as repeats and assignment of product names to these genes.
Highlights
The Department of Energy (DOE-JGI) Microbial Annotation Pipeline (DOEJGI MAP) is an automated pipeline for the annotation of bacterial and archaeal genomes
The DOE-JGI Microbial Annotation Pipeline (DOEJGI MAP) is an automated pipeline for the annotation of bacterial and archaeal genomes. Annotation includes both the identification of proteincoding and non-coding genes and repeats, as well as the prediction of the function of each gene and the assignment of a product name. The output of this pipeline is available through Integrated Microbial Genome [1] (IMG)-ER, which allows genomic analysis and manual curation in a comparative context of hundreds of genomes
The DOE-JGI MAP uses as input a multi fasta file containing the nucleotide sequences for annotation
Summary
The DOE-JGI Microbial Annotation Pipeline (DOEJGI MAP) is an automated pipeline for the annotation of bacterial and archaeal genomes. Annotation includes both the identification of proteincoding and non-coding genes and repeats, as well as the prediction of the function of each gene and the assignment of a product name. The output of this pipeline is available through IMG-ER, which allows genomic analysis and manual curation in a comparative context of hundreds of genomes. The DOE-JGI MAP uses as input a multi fasta file containing the nucleotide sequences for annotation. The pipeline is implemented in Perl and uses a series of publicly available software applications
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