Hi,
I sequenced the genome of an organism a few years ago and got an ok assembly (~100 contigs but many regions with N's).
Recently, we re-sequenced the genome of the same organism and I would like to map the new reads to the old nucleotide contigs. With an increased insert length, I was hoping to also expand the contigs in an attempt to reduce their number.
I used bowtie to map my reads to the old contig sequence but this didn't expand my contig lengths.
Is there a way to do this?
I sequenced the genome of an organism a few years ago and got an ok assembly (~100 contigs but many regions with N's).
Recently, we re-sequenced the genome of the same organism and I would like to map the new reads to the old nucleotide contigs. With an increased insert length, I was hoping to also expand the contigs in an attempt to reduce their number.
I used bowtie to map my reads to the old contig sequence but this didn't expand my contig lengths.
Is there a way to do this?
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