NG-Tax picrust 2 workflow Version 1
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Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| forward_reads | forward reads | forward sequence file locally |
|
| reverse_reads | reverse reads | reverse sequence file locally |
|
| forward_primer | Forward primer | Forward primer used |
|
| reverse_primer | Reverse primer | Reverse primer used |
|
| reference_db | Reference database | Reference database used in FASTA format |
|
| rev_read_len | Reverse read length | Read length of the reverse read |
|
| for_read_len | Reverse read length | Read length of the reverse read |
|
| sample | Sample name | Name of the sample being analysed |
|
| fragment | Subfragment name | Subfragment that is being analysed (e.g. V1-V3 or V5-region) |
|
| primersRemoved | Primers are removed | Wether the primers are removed or not from the input files |
|
| threads | number of threads | number of threads to use for computational processes |
|
| metadata | Metadata file | UNLOCK assay metadata file |
|
Steps
| ID | Name | Description |
|---|---|---|
| fastqc | n/a | n/a |
| reads_to_folder | n/a | n/a |
| ngtax | n/a | n/a |
| ngtax_to_tsv-fasta | n/a | n/a |
| picrust2 | n/a | n/a |
| folder_compression | n/a | n/a |
| fastqc_files_to_folder | n/a | n/a |
| ngtax_files_to_folder | n/a | n/a |
| picrust_files_to_folder | n/a | n/a |
| phyloseq_files_to_folder | n/a | n/a |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| turtle | n/a | Used for other workflows |
|
| files_to_folder_fastqc | n/a | n/a |
|
| files_to_folder_ngtax | n/a | n/a |
|
| files_to_folder_picrust2 | n/a | n/a |
|
| files_to_folder_phyloseq | n/a | n/a |
|
Version History
master
Creators and SubmitterViews: 1116 Downloads: 264
Created: 31st Jan 2022 at 13:42
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