Files

• LICENSE
• MANIFEST
• META.yml
• Makefile.PL
• README
• README.md
• dist.ini
• lib/Bio/MLST/Blast/BlastN.pm
• lib/Bio/MLST/Blast/Database.pm
• lib/Bio/MLST/Check.pm
• lib/Bio/MLST/CompareAlleles.pm
• lib/Bio/MLST/DatabaseSettings.pm
• lib/Bio/MLST/Databases.pm
• lib/Bio/MLST/Download/Database.pm
• lib/Bio/MLST/Download/Databases.pm
• lib/Bio/MLST/Download/Downloadable.pm
• lib/Bio/MLST/Exceptions.pm
• lib/Bio/MLST/NormaliseFasta.pm
• lib/Bio/MLST/OutputFasta.pm
• lib/Bio/MLST/ProcessFasta.pm
• lib/Bio/MLST/SearchForFiles.pm
• lib/Bio/MLST/SequenceType.pm
• lib/Bio/MLST/Spreadsheet/File.pm
• lib/Bio/MLST/Spreadsheet/Row.pm
• lib/Bio/MLST/Types.pm
• lib/Bio/MLST/Validate/Executable.pm
• lib/Bio/MLST/Validate/File.pm
• scripts/download_mlst_databases
• scripts/get_sequence_type
• t/Blast/BlastN.t
• t/Blast/Database.t
• t/Download/Database.t
• t/Download/Databases.t
• t/Input/NormaliseFasta.t
• t/Output/Databases.t
• t/Output/MultipleFastas.t
• t/Output/OutputFasta.t
• t/Output/SpreadsheetRow.t
• t/Overall/CheckAllModulesCompile.t
• t/SequenceTypes/CompareAlleles.t
• t/SequenceTypes/SearchForFiles.t
• t/SequenceTypes/SequenceType.t
• t/Settings/DatabaseSettings.t
• t/data/Escherichia_coli_1/alleles/adk.tfa
• t/data/Escherichia_coli_1/alleles/purA.tfa
• t/data/Escherichia_coli_1/alleles/recA.tfa
• t/data/Escherichia_coli_1/profiles/escherichia_coli.txt
• t/data/abc.fas
• t/data/adk.tfa
• t/data/adk_99_percent.tfa
• t/data/adk_contamination.tfa
• t/data/adk_less_than_95_percent.tfa
• t/data/adk_top_hit_low_hit.tfa
• t/data/bbb.fas
• t/data/bordetella.txt
• t/data/ccc.fas
• t/data/contigs.fa
• t/data/contigs_near_match.fa
• t/data/contigs_novel.fa
• t/data/contigs_one_unknown.tfa
• t/data/contigs_pipe_character_in_seq_name.fa
• t/data/ddd.fas
• t/data/eee.fas
• t/data/efg.fas
• t/data/expected_concatenated_alleles.fa
• t/data/expected_mlst_results.allele.csv
• t/data/expected_mlst_results.genomic.csv
• t/data/expected_three_concatenated_alleles.fa
• t/data/expected_three_contigs_one_unknown.unknown_allele.adk-2.fa
• t/data/expected_three_contigs_one_unknown.unknown_allele.recA-1.fa
• t/data/expected_three_mlst_results.allele.csv
• t/data/expected_three_mlst_results.genomic.csv
• t/data/expected_two_concatenated_alleles.fa
• t/data/expected_two_mlst_results.allele.csv
• t/data/expected_two_mlst_results.genomic.csv
• t/data/homo_sapiens.txt
• t/data/overall_databases.xml
• t/data/purA.tfa
• t/data/recA.tfa