| Bio::MLST::Blast::BlastN |
Wrapper around NCBI BlastN |
v2.1.1630714 |
metacpan |
| Bio::MLST::Blast::Database |
Wrapper around NCBIs makeblastdb command |
v2.1.1630714 |
metacpan |
| Bio::MLST::CDC::Convert |
Take in a fasta file of emmST sequences and convert it into an MLST format |
v2.1.1630714 |
metacpan |
| Bio::MLST::Check |
Multilocus sequence type checking using blast |
v2.1.1630714 |
metacpan |
| Bio::MLST::CheckMultipleSpecies |
High throughput multilocus sequence typing (MLST) checking against several MLST databases. |
v2.1.1630714 |
metacpan |
| Bio::MLST::CompareAlleles |
Get a list of matching alleles between the sequence and database |
v2.1.1630714 |
metacpan |
| Bio::MLST::DatabaseSettings |
Read in an XML file of settings and return a hash with the values. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Databases |
List available MLST databases |
v2.1.1630714 |
metacpan |
| Bio::MLST::Download::Database |
Represents a single genus-species database on a single species |
v2.1.1630714 |
metacpan |
| Bio::MLST::Download::Databases |
Represents multiple databases of species |
v2.1.1630714 |
metacpan |
| Bio::MLST::Download::Downloadable |
Moose Role to download everything data |
v2.1.1630714 |
metacpan |
| Bio::MLST::FilterAlleles |
Filter Alleles |
v2.1.1630714 |
metacpan |
| Bio::MLST::NormaliseFasta |
Take in a Fasta file, check for invalid characters and build a corrected file if needed. |
v2.1.1630714 |
metacpan |
| Bio::MLST::OutputFasta |
Take in two hashes, both containing sequence names and sequences and output fasta files. |
v2.1.1630714 |
metacpan |
| Bio::MLST::ProcessFasta |
Take in a fasta file, lookup the MLST database and create relevant files. |
v2.1.1630714 |
metacpan |
| Bio::MLST::SearchForFiles |
Take in a species name and get the allele and profile files. |
v2.1.1630714 |
metacpan |
| Bio::MLST::SequenceType |
Take in a list of matched alleles and look up the sequence type from the profile. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Spreadsheet::File |
Create a file representation of the ST results for multiple fasta files. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Spreadsheet::Row |
Create a row representation of the ST results for a single fasta file. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Types |
Moose types to use for validation. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Validate::Executable |
Validates the executable is available in the path before running it. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Validate::File |
Check to see if a file exists. For validation when classes have input files. |
v2.1.1630714 |
metacpan |
| Bio::MLST::Validate::Resource |
Check to see if a file exists or if a uri is valid. For validation when classes have input files which may be local or on the web. |
v2.1.1630714 |
metacpan |