Bon jour!
For one of my bacteria (~10Mb genome; 70+% G+C) I have both an Ion Torrent
200bp read chemistry dataset and 2x150 Illumina MiSeq data, both as FASTQ
files.
Does Ray attempt to infer the platform for a dataset and do anything
special (such as a platform-specific error model)?
Related question: in some cases I have preprocessed my Illumina paired end
datasets with FLASH (http://genomics.jhu.edu/software/FLASH/index.shtml),
which merges overlapping paired end reads into a single synthetic read.
Any foreseeable issues with using such preprocessing upstream of Ray?
thanks
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