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Andrew Page
Documentation
annotate_bacteria - Annotate some bacteria
gene_name_occurances - Create a spreadsheet with gene name occurances
parse_genes_from_gffs - Parse genes out of gff files
Modules
Bio::AutomatedAnnotation - Automated annotation of assemblies
Bio::AutomatedAnnotation::CommandLine::AnnotateBacteria - provide a commandline interface to the annotation wrappers
Bio::AutomatedAnnotation::CommandLine::GeneNameOccurances - Create a spreadsheet with gene name occurances
Bio::AutomatedAnnotation::CommandLine::ParseGenesFromGFFs - provide a commandline interface to pull out genes from multiple GFF files
Bio::AutomatedAnnotation::Exceptions - Exceptions for input data
Bio::AutomatedAnnotation::External::Cmscan - Run and parse the output of cmscan
Bio::AutomatedAnnotation::GeneNameOccurances - Parse the gene names from multiple GFF files and provide a matrix of matches.
Bio::AutomatedAnnotation::GeneNamesFromGFF - Parse a GFF and efficiently extract out the Gene Names
Bio::AutomatedAnnotation::ParseGenesFromGFF - Parse a GFF file and efficiency extract the gene sequence.
Bio::AutomatedAnnotation::ParseGenesFromGFFs - Parse GFF files and efficiency extract the gene sequence.
Bio::AutomatedAnnotation::Prokka - Prokka class for bacterial annotation
Bio::AutomatedAnnotation::SpreadsheetOfGeneOccurances - Output a spreadsheet with the gene occurances per file



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