mgnify-amplicon-pipeline-v5-complete/main
v0.4 (latest)

v0.4 (latest)

v0.2

v0.1 (earliest)

Workflow Type: Galaxy

MGnify's amplicon pipeline v5.0. Including the Quality control for single-end and paired-end reads, rRNA-prediction, and ITS sub-WFs.

SEEK ID: https://workflowhub.eu/workflows/1274?version=3

Steps

ID	Name	Description
21	fastq-dl	toolshed.g2.bx.psu.edu/repos/iuc/fastq_dl/fastq_dl/4.0.1+galaxy0
22	Convert gz compressed file to uncompressed.	CONVERTER_gz_to_uncompressed
23	Convert gz compressed file to uncompressed.	CONVERTER_gz_to_uncompressed
24	Text reformatting	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.5+galaxy3
25	Text reformatting	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.5+galaxy3
26	Convert uncompressed file to compressed	CONVERTER_uncompressed_to_gz
27	Convert uncompressed file to compressed	CONVERTER_uncompressed_to_gz
28	MGnify's amplicon pipeline v5.0 - Quality control SE	n/a
29	MGnify's amplicon pipeline v5.0 - Quality control PE	n/a
30	Merge collections	__MERGE_COLLECTION__
31	MGnify's amplicon pipeline v5.0 - rRNA prediction	n/a
32	MGnify's amplicon pipeline v5.0 - ITS	n/a
33	Map empty/not empty collection to boolean	n/a
34	Map empty/not empty collection to boolean	n/a
35	Map empty/not empty collection to boolean	n/a
36	Map empty/not empty collection to boolean	n/a
37	MGnify amplicon summary tables	n/a
38	MGnify amplicon summary tables	n/a
39	ITSoneDB summary tables	n/a
40	UNITE summary tables	n/a

Updated to v0.4

Frozen v0.4 1017064

Updated to v0.2

Frozen v0.2 731cdfa

Updated to v0.1

Frozen v0.1 bf4348a

Creators and Submitter

EMBL's European Bioinformatics Institute

License

Activity

Views: 4305 Downloads: 15994 Runs: 2

Created: 4th Feb 2025 at 03:02

Annotated Properties

Scientific disciplines

Computer Science