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Merge BAM files using SAMTools merge.

Element type: merge-bam

Parameters

ParameterDescriptionDefault valueParameter in Workflow FileType
Output directorySelect 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-modenumeric
Custom directoryCustom output directory.
custom-dir

string

Output BAM nameA 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-namestring

Input/Output Ports

The element has 1 input port:

Name in GUI: BAM File

Name in Workflow File: in-file

Slots:

Slot In GUISlot in Workflow FileType
Source URLinput-urlstring

And 1 output port:

Name in GUI: Merged BAM files

Name in Workflow File: out-file

Slots:

Slot In GUISlot in Workflow FileType
Source URLoutput-urlstring
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