How do the different mappers handle reads extending past the end of a reference sequence? I am unclear as to how BWA, Bowtie2, or <#insert favorite mapper> scores sequences which map t the end of a chromosome but also partially extend past the reference. In particular, I am interested in how to score a reads mapped to the 'end' of bacterial genomes (in reality, spanning the bacterial origin), when the genome must be represented as linear in the typical .fasta.
Question: How do mappers behave at end of reference sequence?
4.2 years ago by
nickp60 • 30
nickp60 • 30 wrote:
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