I'm currently trying to visualize the pileup of a sample to determine if there is a 5 Base Pair deletion and if there is another deletion 1 Base pair down stream.
I have access to the following files for the sample:
I have access to BaseSpace by Illumina, Galaxy, and IGV.
Could anyone tell me how to visualize these alignments and how to see the pileup. I just need to know what files and what tools to use. It would be very much appreciated. Thank you for any help!