millironx/taxprofiler
1
0
Fork 0
mirror of https://github.com/MillironX/taxprofiler.git synced 2024-11-26 03:59:54 +00:00
Code Issues Releases Packages Activity

Merge pull request #94 from MillironX/feature/centrifuge2krona

Browse source 
Add Krona output for Centrifuge profiles
This commit is contained in:
James A. Fellows Yates 2022-06-27 17:13:31 +02:00 committed by GitHub
commit e66c2b9b87
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
1 changed files with 2 additions and 0 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

2
subworkflows/local/visualization_krona.nf
View file

@ -20,6 +20,7 @@ workflow VISUALIZATION_KRONA {
*/
ch_input_profiles = profiles
.branch {
centrifuge: it[0]['tool'] == 'centrifuge'
kraken2: it[0]['tool'] == 'kraken2'
unknown: true
}
@ -28,6 +29,7 @@ workflow VISUALIZATION_KRONA {
Convert Kraken2 formatted reports into Krona text files
*/
ch_kraken_reports = ch_input_profiles.kraken2
.mix( ch_input_profiles.centrifuge )
KRAKENTOOLS_KREPORT2KRONA ( ch_kraken_reports )
ch_krona_text = ch_krona_text.mix( KRAKENTOOLS_KREPORT2KRONA.out.txt )
ch_versions = ch_versions.mix( KRAKENTOOLS_KREPORT2KRONA.out.versions.first() )