This code implements a sequence-specific bias correction feature based on assessing the k-mer (hexamer) composition surrounding the start of the read mapping locations. The distributions of k-mers surrounding read start positions are compared to transcriptome-wide kmer composition (based on abundance estimates) and the relative difference between the two used to determine and correct for sequence-specific bias.
This code implements a sequence-specific bias correction feature based on assessing the k-mer (hexamer) composition surrounding the start of the read mapping locations. The distributions of k-mers surrounding read start positions are compared to transcriptome-wide kmer composition (based on abundance estimates) and the relative difference between the two used to determine and correct for sequence-specific bias.