lcolladotor / derfinder

Annotation-agnostic differential expression analysis of RNA-seq data via expressed regions-level or single base-level approaches

Home Page:http://lcolladotor.github.io/derfinder

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handle strand-specific alignments?

alyssafrazee opened this issue · comments

is it possible to handle strand-specific alignments? (i.e. get counts and run the pipeline for each strand separately?)

Note that related to leekgroup/derfinder#5, you should be aware of how Rsamtools handles the reverse complement issue. More details at

library("Rsamtools")
?scanBamParam