Hi all,
I have a genome in a state of partial assembly and a transcriptome that has been de novo assembled.
I am curious if I can tell the difference between an allelic SNP and a recent gene duplication event?
The organism that was sequences is parthenogenic and is supposed to be homozygous. If I look at mapped transcriptome reads in IGV I see a lot of what look like allelic SNPs, but if there was someway to confirm that they are actually alleles that would be great.
I have a genome in a state of partial assembly and a transcriptome that has been de novo assembled.
I am curious if I can tell the difference between an allelic SNP and a recent gene duplication event?
The organism that was sequences is parthenogenic and is supposed to be homozygous. If I look at mapped transcriptome reads in IGV I see a lot of what look like allelic SNPs, but if there was someway to confirm that they are actually alleles that would be great.