Hi All
I am dealing with a smallRNA seq dataset from Ilumina machines in patients that showed trinucleotide expansions in some genes. Since this is a repetitive region that could be matched elsewhere in the genome, how can I deal with that ?.
I am using Bowtie for alingning the reads. When I use a very astringent approach (-m 1), I got no reads aligned with my region...
Any of you is dealing with something like that. Any suggestions for more specialized software do circunvent these problems ?
All the best and thanks in advance
Paco
I am dealing with a smallRNA seq dataset from Ilumina machines in patients that showed trinucleotide expansions in some genes. Since this is a repetitive region that could be matched elsewhere in the genome, how can I deal with that ?.
I am using Bowtie for alingning the reads. When I use a very astringent approach (-m 1), I got no reads aligned with my region...
Any of you is dealing with something like that. Any suggestions for more specialized software do circunvent these problems ?
All the best and thanks in advance
Paco