Workflow Type: Common Workflow Language
Stable

Amplicon analysis workflow using NG-Tax

Steps:

  • Quality control on the reads
  • Execute NGTax for ASV detection and classification

For more information about NG-Tax 2.0 have a look at https://doi.org/10.3389/fgene.2019.01366

Click and drag the diagram to pan, double click or use the controls to zoom.

Inputs

ID Name Description Type
forward_reads forward reads forward sequence file locally
  • File
reverse_reads reverse reads reverse sequence file locally
  • File?
forward_primer Forward primer Forward primer used
  • string
reverse_primer Reverse primer Reverse primer used
  • string?
reference_db Reference database Reference database used in FASTA format
  • string?
rev_read_len Reverse read length Read length of the reverse read
  • int?
for_read_len Reverse read length Read length of the reverse read
  • int
sample Sample name Name of the sample being analysed
  • string

Steps

ID Name Description
fastqc n/a n/a
reads_to_folder n/a n/a
ngtax n/a n/a
fastqc_files_to_folder n/a n/a
ngtax_files_to_folder n/a n/a

Outputs

ID Name Description Type
files_to_folder_fastqc n/a n/a
  • Directory
files_to_folder_ngtax n/a n/a
  • Directory

Version History

Version 7 (latest) Created 28th Oct 2020 at 11:07 by Jasper Koehorst

No revision comments

Open master e10f31f
help Creators and Submitter
Creators
Additional credit

Jesse van Dam, Peter Schaap,

Submitter
Discussion Channel
Activity

Views: 10201   Downloads: 346

Created: 23rd Jul 2020 at 10:59

Last updated: 8th Jun 2021 at 08:11

help Attributions

None

Total size: 3.75 KB
Powered by
(v.1.16.0-main)
Copyright © 2008 - 2024 The University of Manchester and HITS gGmbH