SeqOthello: Query over RNA-seq experiments at scale

Abstract

<p><strong>SeqOthello</strong> is an ultra-fast and memory-efficient indexing structure to support arbitrary sequence query against large collections of RNA-seq experiments. Taking a sequence as query input, SeqOthello returns either the total <em>k</em>-mer hits of the query sequence or the detailed presence/absence information of individual k-mers across all the indexed experiments.</p