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

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

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Open master e10f31f
help Creators and Submitter
Creators
Additional credit

Jesse van Dam, Peter Schaap,

Submitter
Discussion Channel
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Activity

Views: 5116   Downloads: 62

Created: 23rd Jul 2020 at 10:59

Last updated: 8th Jun 2021 at 08:11

Last used: 2nd Dec 2022 at 06:20

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Total size: 3.75 KB
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