FASTQ Merger Element
Merges input sequences into one output file.
Element type: MergeFastq
Parameters
| Parameter | Description | Default Value | Parameter in Workflow File | Type |
|---|---|---|---|---|
| Output directory | Select an output directory. Custom – specify the output directory in the ‘Custom directory’ parameter. Workflow – internal workflow directory. Input file – the directory of the input file. | (not set) | out-mode | string |
| Output file name | The name of the output file. If the default or an empty value is provided, the output name is the name of the first file with an additional extension. | (not set) | out-name | string |
Input/Output Ports
Input Port
| Name in GUI | Name in Workflow File | Slot | Slot in Workflow File | Type |
|---|---|---|---|---|
| Input File | in-file | Source URL | url | string |
Output Port
| Name in GUI | Name in Workflow File | Slot | Slot in Workflow File | Type |
|---|---|---|---|---|
| Output File | out-file | Source URL | url | string |
Example
ugene workflow run \
--element MergeFastq \
--url input1.fastq,input2.fastq,input3.fastq \
--out-name merged_output.fastq
This command merges multiple FASTQ files into one. Use --out-mode and --custom-dir if you want to set a specific output location.