1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
|
---
Name: Prokka
URL: http://www.vicbioinformatics.com/software.prokka.shtml
Description: >-
Prokka is a software tool for the rapid annotation of prokaryotic genomes.
---
The Prokka module analyses summary results from the
[Prokka](http://www.vicbioinformatics.com/software.prokka.shtml) annotation
pipeline for prokaryotic genomes.
The Prokka module accepts two configuration options:
- `prokka_table`: default `False`. Show a table in the report.
- `prokka_barplot`: default `True`. Show a barplot in the report.
- `prokka_fn_snames`: default `False`. Use filenames for sample names (see below).
Sample names are generated using the first line in the prokka reports:
```txt
organism: Helicobacter pylori Sample1
```
The module assumes that the first two words are the organism name and
the third is the sample name. So the above will give a sample name of
`Sample1`.
If you prefer, you can set `config.prokka_fn_snames` to `True` and MultiQC
will instead use the log filename as the sample name.
|
