Merge BAM files using SAMTools merge.
Element type: merge-bam
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. | out-mode | numeric | |
| Custom directory | Custom output directory. | custom-dir | string | |
| Output BAM name | A name of an output BAM file. If default of empty value is provided the output name is the name of the first BAM file with .merged.bam extention. | out-name | string |
Input/Output Ports
The element has 1 input port:
Name in GUI: BAM File
Name in Workflow File: in-file
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Source URL | input-url | string |
And 1 output port:
Name in GUI: Merged BAM files
Name in Workflow File: out-file
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| Source URL | output-url | string |