Merge BAM files using SAMTools merge.
Parameters in GUI
| Parameter | Description | Default value |
|---|---|---|
| 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. | |
| Custom directory | Custom output directory. | |
| 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. |
Parameters in Workflow File
Type: merge-bam
| Parameter | Parameter in the GUI | Type |
|---|---|---|
| out-mode | Output directory | numeric |
| custom-dir | Custom directory | string |
| out-name | Output 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 |