API for ymatsumoto/mlstverse
An implementation of strain level identification based on MLST (Multi-Locus Sequence Typing)
| Global functions | |
|---|---|
| buildProfiles | Source code |
| calcMLSTScore | Source code |
| createCustomRASTProfile | Source code |
| createProfile | Source code |
| createQuery | Source code |
| db.buildCustomDB | Source code |
| download.fasta | Source code |
| extractOrthologs | Source code |
| extractProduct | Source code |
| extractRPs.NCBI | Source code |
| extractRPs.RAST | Source code |
| extractrRNA.RAST | Source code |
| filter.j | Source code Source code |
| getAssemblySummary | Source code |
| getCDSFasta | Source code |
| getCounts | Source code |
| getGFF | Source code |
| getGenomicFasta | Source code |
| getRefSeqFasta | Source code |
| getRefSeqRNA | Source code |
| mlstDB.build | Source code |
| mlstDB.extract | Source code |
| mlstDB.importGFF | Source code |
| mlstDB.resetIDs | Source code |
| mlstDB.subset | Source code |
| mlstDB.subsetASM | Source code |
| mlstverse | Source code |
| obtainConsensus | Source code |
| readSAM | Source code |
| tmp.func2 | Source code |
| tmp.func3 | Source code |
| updateGID | Source code |
| updateGIDs | Source code Source code |
