Hi All,
I am interested in discovering variants in a gene that has 4 pseudogenes on the same chromosome and 1 pseudogene on another chromosome. The sequence identity between the parent gene and the pseudogene ranges from 88% to 95%.
Currently we have paired-end reads and the aligned bam files for the chromosome that contains the gene. How do I avoid mapping the reads to pseudogenes?
Thanks!
I am interested in discovering variants in a gene that has 4 pseudogenes on the same chromosome and 1 pseudogene on another chromosome. The sequence identity between the parent gene and the pseudogene ranges from 88% to 95%.
Currently we have paired-end reads and the aligned bam files for the chromosome that contains the gene. How do I avoid mapping the reads to pseudogenes?
Thanks!
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