mapping reads to open reading frames

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Caroline Fortunato

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Apr 12, 2014, 2:42:06 PM4/12/14

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Hi,

I have annotated contigs from 10 metagenomes that I would like to map my raw reads back to in order to determine gene abundance. However, when I download my annotations, the coding sequence file provided is in amino acid format, not nucleotide. I would like to use the coding sequences, not just the contigs, for mapping. Is there a way to do this using tools on IMG/MER? or can I easily obtain the coding sequences in nucleotide format? Thanks,