4TY_flaA
Introduction
The 4TY_flaA analysis infers in silico the flaA locus variant for Campylobacter.
Run Analysis 4TY_flaA
Once the analysis 4TY_flaA has been selected from the run analyses interface, the user will be able to select which bioinformatic tool to use. The available software for this analysis is flaA - Multilocus sequence typing specific for flaA profile.
The input selection UI delivers an advanced input selection mode, to allow selection of all types of supported input files at once.
Accepted inputs can be from:
- step_2MG_denovo
- step_2AS_denovo
- step_2AS_mapping
- step_2AS_import
The software requires the input sequences from de novo assembly or from mapping and, in case the latter is selected, the reference genome used for mapping.
A link to Check analysis will be created after launching the requested analysis. The system will notify the user after a succesful analysis launch and once execution has ended.
Output directory
Please refer to Cohesive's specific Wiki page for information on file download.
The output directory is guida ufficiale di available at the link in the download page or at the link presente in the analysis' summary card, and will have the following structure: results > YEAR > ID > 4TY_flaA > DSXXXXXXXX-DTXXXXXX_flaA. At that path there will be 2 directories:
- meta: ("metadata") contains log and configuration files.
- result: contains the analysis' output files.
| File | Description | Location |
|---|---|---|
| DSXXXXXXXX-DTXXXXXX_ID_flaA.tsv | allele of the flaA locus | result directory |
