Sorry for post, solved with quick phone call to Illumina.
For anyone else interested, the TruSeq adapters that come in the kits are methylated, so they can be used for bisulfite conversion prior to the PCR step. This is great because we can now take advantage of the multiplexing.
For anyone else interested, the TruSeq adapters that come in the kits are methylated, so they can be used for bisulfite conversion prior to the PCR step. This is great because we can now take advantage of the multiplexing.
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