4.5 identifyIlluminaReadGroups - Reassigning read groups based on the platform unit in their name
identifyIlluminaReadGroups corrects read group IDs. Read group IDs consist of the flowcell name and the lane number, both of which are in the platform unit which is read from the header file. This task checks if each read’s read group ID is in accordance with illumina standard and if not, it corrects it. More information regarding read groups can be found here.
Input
Required inputs :
--bam Input_bam_file.bam |
Input bam file |
Optional inputs :
None
Specific parameters :
Engine parameters that are common to all tasks can be found here.