krona_ktimporttext
Description¶
Creates a Krona chart from text files listing quantities and lineages.
Pipelines¶
This module is used by the following pipelines:
Installation¶
ebi-metagenomics/krona/ktimporttext
nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install krona/ktimporttext
Tools¶
krona¶
Krona Tools is a set of scripts to create Krona charts from several Bioinformatics tools as well as from text and XML files.
- http://manpages.ubuntu.com/manpages/impish/man1/ktImportTaxonomy.1.html
- 10.1186/1471-2105-12-385
- github.com/marbl/Krona
- https://raw.githubusercontent.com/marbl/Krona/master/KronaTools/LICENSE.txt
Input¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'test'] | - |
report |
file | Tab-delimited text file. Each line should be a number followed by a list of wedges to contribute to (starting from the highest level). If no wedges are listed (and just a quantity is given), it will contribute to the top level. If the same lineage is listed more than once, the values will be added. Quantities can be omitted if -q is specified. Lines beginning with '#' will be ignored. | *.{txt} |
Output¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'test' ] | - |
versions |
file | File containing software versions | versions.yml |
html |
file | A html file containing an interactive krona plot. | *.{html} |
