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Remove Duplicate

This module is optional for this tutorial, user can run this or just skip this part, and jump to the step for Quantification. Remove Duplicate can be used to remove duplication for Single Cell Bam files. The module will be useful if the user wants to have a clean (duplicate removed) BAM file for downstream analysis.

To access this module, user can go to Analysis | NGS | Single Cell RNA-Seq | Remove Duplicates:


Use the default options and just input the Output name and output folder, then click Send To Queue to submit this job:


Once this job is finished, user should be able to see a new NgsData object in Array Studio GUI, as well as new BAM files in the specified output folder: