Hi All,
I've just read the various threads about dealing with paired end reads, but none seemed to address my problem.
I've got several metagenomic datasets consisting of paired end reads from Illumina MiSeq technology, which we are planning on BLASTing. Reads are 100bp in length and are from a 300-400 bp fraction, so will not overlap. I'd like to know if there is a way in which I can combine each pair into a single file, which can be BLASTed to increase the accuracy of the BLAST.
Also, would I be correct in saying that I require a reverse compliment of the R2 read before combination?
Sorry if this is a little vague, I can provide more information if required.
Thanks
Joe
I've just read the various threads about dealing with paired end reads, but none seemed to address my problem.
I've got several metagenomic datasets consisting of paired end reads from Illumina MiSeq technology, which we are planning on BLASTing. Reads are 100bp in length and are from a 300-400 bp fraction, so will not overlap. I'd like to know if there is a way in which I can combine each pair into a single file, which can be BLASTed to increase the accuracy of the BLAST.
Also, would I be correct in saying that I require a reverse compliment of the R2 read before combination?
Sorry if this is a little vague, I can provide more information if required.
Thanks
Joe
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