Quick start commands
- Deposit the assembled genomes of the strains you want to compare in the input_tool3 folder.
- Set up a stable connection:
- To run Tool 3:
tmux new -s
nextflow run tool_3.nf --runID '' [options]
Options
| Term | Description | Default |
|---|---|---|
--runID 'aaa' |
name chosen by user | not_specified |
--identity 'bbb' |
minimum percentage identity for blastp | 99 |
--core 'ccc' |
percentage of isolates a gene must be in to be core | 95 |
Example
nextflow run tool_3.nf --runID 'arwen' --identity '90' --core '75'
Tip
To view the Quick start instructions from the command line use:
nextflow run tool_3.nf --help