Hello,
I did feature coverage with SeqMonk,
and I have problems to know where my reads map:
I used a mRNA probe generator,
then in my output file,
I have often a different name for the probe and the feature.
For example I find probe's name is Star-001_gene but feature's name is ASH2L-012.
When I look to the chromosome view in SeqMonk, I see that STAR and ASH2L overlap and are not on the same strand.
what should I take into account : the probe's name or the feature's name.
As this situations happens too often in my data, it will make a big difference when I look for GO terms associated with my transcriptome.
thank you for your help,
anna
I did feature coverage with SeqMonk,
and I have problems to know where my reads map:
I used a mRNA probe generator,
then in my output file,
I have often a different name for the probe and the feature.
For example I find probe's name is Star-001_gene but feature's name is ASH2L-012.
When I look to the chromosome view in SeqMonk, I see that STAR and ASH2L overlap and are not on the same strand.
what should I take into account : the probe's name or the feature's name.
As this situations happens too often in my data, it will make a big difference when I look for GO terms associated with my transcriptome.
thank you for your help,
anna