Hello
My sequencing output largely consists of Illumina (NextSeq and Miseq) NON-overlapping paired end reads (the occasional reads will overlap, as the DNA is not all fragmented evenly). For ease of storage and to simplify input data at the start of a workflow, I would like to combine the files.
If I understand correctly, bbmerge is specifically for merging overlapping reads? In which case I am best off simply using the bbmap reformat.sh to combine the reads in to one interleaved file?
My sequencing output largely consists of Illumina (NextSeq and Miseq) NON-overlapping paired end reads (the occasional reads will overlap, as the DNA is not all fragmented evenly). For ease of storage and to simplify input data at the start of a workflow, I would like to combine the files.
If I understand correctly, bbmerge is specifically for merging overlapping reads? In which case I am best off simply using the bbmap reformat.sh to combine the reads in to one interleaved file?
Code:
reformat.sh in1=read1.fq in2=read2.fq out=reads.fq
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