API for phac-nml/wade
Executes molecular typing on contig assemblies
| Global functions | |
|---|---|
| AAconvert | Source code |
| EMM_V_pipeline | Source code |
| EMM_pipeline | Man page Source code |
| MASTER_pipeline | Man page Source code |
| MIC_compare | Man page Source code |
| MICcalc | Source code |
| MLST_pipeline | Man page Source code |
| MakeblastDB_pipeline | Man page Source code |
| Org_id | Man page |
| SEROTYPE_pipeline | Man page Source code |
| SNPcount | Source code |
| allele1SNP | Source code |
| allele2SNPs | Source code |
| allele3SNPs | Source code |
| allele4SNPs | Source code |
| allele5SNPs | Source code |
| blasthits | Source code |
| blastquery | Source code |
| buildSNVtable | Man page Source code |
| find_sample_duplicates | Man page Source code |
| getdirectory | Man page Source code |
| getmotifs | Source code |
| getsampleinfo | Source code |
| labware_gas_amr | Man page Source code |
| labware_gas_toxins | Man page Source code |
| labware_gbs_amr | Man page Source code |
| labware_gono_amr | Man page Source code |
| labware_pneumo_amr | Man page Source code |
| labware_pneumo_virulence | Man page Source code |
| locusblast | Source code |
| metrics | Man page Source code |
| mutationblast | Source code |
| nwk_rename_samples | Man page |
| nwk_sort_order | Man page Source code |
| parseblast | Source code |
| posneg_gene | Source code |
| proximity_test | Man page Source code |
| quickBlastIndex | Source code |
| rRNA16S_pipeline | Man page Source code |
| rRNA23S_pipeline | Man page Source code |
| refdirectory | Source code |
| remove_duplicates_fasta | Man page Source code |
| removefiles | Source code |
| rename_contigs | Man page |
| rename_submitted | Man page Source code |
| update_lookups | Man page Source code |
| variantgenotype | Source code |
