Has anyone run the PEMer workflow using Illumina data? I have been looking through the documentation and have created the conversion file from the Maq output, but there doesn't seem to be much information on how to use that file within the workflow.
We have PEMer installed so I wanted to run it to compare with Breakdancer, but so far it has been a hassle since it isn't very obvious how to work with the Illumina data, any help is appreciated.
Thanks!
We have PEMer installed so I wanted to run it to compare with Breakdancer, but so far it has been a hassle since it isn't very obvious how to work with the Illumina data, any help is appreciated.
Thanks!
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