Table of Contents - reubypathdb-0.3.1 Documentation
Pages
Classes and Modules
- Bio
- Bio::EuPathDB
- Bio::EuPathDB::FastaAnnotation
- Bio::EuPathDB::FastaParser
- Bio::EuPathDB::ParseException
- EuPathDBGeneInformation
- EuPathDBGeneInformationFileExtractor
- EuPathDBGeneInformationTable
- EuPathDBSpeciesData
- EupathDBGFF
- EupathDBGFFRecord
- JgiGenesGff
- JgiGenesIterator
- JgiGffRecord
- PositionedGene
- PositionedGeneWithOntology
Methods
- ::download — EuPathDBSpeciesData
- ::new — Bio::EuPathDB::FastaParser
- ::new — EuPathDBGeneInformationFileExtractor
- ::new — EuPathDBGeneInformationTable
- ::new — EupathDBGFF
- ::new — EuPathDBSpeciesData
- ::new — JgiGenesGff
- ::new — JgiGffRecord
- ::new — JgiGenesIterator
- ::species_data_from_database — EuPathDBSpeciesData
- #[] — EuPathDBGeneInformation
- #add_information — EuPathDBGeneInformation
- #add_table — EuPathDBGeneInformation
- #cds_end — PositionedGene
- #cds_start — PositionedGene
- #database — EuPathDBSpeciesData
- #directories_for_mkdir — EuPathDBSpeciesData
- #distance_iterator — JgiGenesGff
- #each — Bio::EuPathDB::FastaParser
- #each — EuPathDBGeneInformationTable
- #eu_path_db_download_directory — EuPathDBSpeciesData
- #eu_path_db_fasta_download_directory — EuPathDBSpeciesData
- #eu_path_db_gff_download_directory — EuPathDBSpeciesData
- #eu_path_db_txt_download_directory — EuPathDBSpeciesData
- #extract_gene_info — EuPathDBGeneInformationFileExtractor
- #gene_information_filename — EuPathDBSpeciesData
- #gene_information_gzfile_filename — EuPathDBSpeciesData
- #gene_information_gzfile_path — EuPathDBSpeciesData
- #gene_information_path — EuPathDBSpeciesData
- #genomic_fasta_filename — EuPathDBSpeciesData
- #get_info — EuPathDBGeneInformation
- #get_table — EuPathDBGeneInformation
- #gff_filename — EuPathDBSpeciesData
- #gff_path — EuPathDBSpeciesData
- #go_identifiers — PositionedGeneWithOntology
- #has_next_distance — JgiGenesIterator
- #ignore_line? — EupathDBGFF
- #ignore_record? — EupathDBGFF
- #info — EuPathDBGeneInformation
- #local_download_directory — EuPathDBSpeciesData
- #method_missing — EuPathDBSpeciesData
- #next_distance — JgiGenesIterator
- #next_entry — Bio::EuPathDB::FastaParser
- #next_gene — EuPathDBGeneInformationTable
- #next_gene — EupathDBGFF
- #next_gene — JgiGenesGff
- #next_gene — JgiGenesIterator
- #one_word_name — EuPathDBSpeciesData
- #parse_attributes — EupathDBGFFRecord
- #parse_attributes — JgiGffRecord
- #parse_mandatory_columns — JgiGffRecord
- #parse_name — Bio::EuPathDB::FastaParser
- #parse_name — JgiGenesGff
- #parse_protein_id — JgiGenesGff
- #positive_strand? — PositionedGene
- #protein_blast_database_path — EuPathDBSpeciesData
- #protein_fasta_file_iterator — EuPathDBSpeciesData
- #protein_fasta_filename — EuPathDBSpeciesData
- #protein_fasta_path — EuPathDBSpeciesData
- #read_record — EupathDBGFF
- #read_record — JgiGenesGff
- #representative_strain_name — EuPathDBSpeciesData
- #setup_gene_from_first_line — EupathDBGFF
- #to_s — JgiGffRecord
- #transcript_fasta_filename — EuPathDBSpeciesData
- #transcript_fasta_path — EuPathDBSpeciesData
- #version — EuPathDBSpeciesData