Have you tried reformat.sh that is part of BBMap suite (http://seqanswers.com/forums/showthr...=reformat.sh)?
You should be able to get back the lane specific files (you will need to parse them out) as long as fastq identifier was not changed.
You should be able to get back the lane specific files (you will need to parse them out) as long as fastq identifier was not changed.
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