ABMapper: a suffix array-based tool for multi-location searching and splice-junction mapping
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AbstractSequencing reads generated by RNA-sequencing (RNA-seq) must first be mapped back to the genome through alignment before they can be further analyzed. Current fast and memory-saving short-read mappers could give us a quick view of the transcriptome. However, they are neither designed for reads that span across splice junctions nor for repetitive reads, which can be mapped to multiple locations in the genome (multi-reads). Here, we describe a new software package: ABMapper, which is specifically designed for exploring all putative locations of reads that are mapped to splice junctions or repetitive in nature.
All Author(s) ListLou SK, Ni B, Lo LY, Tsui SKW, Chan TF, Leung KS
Journal nameBioinformatics
Volume Number27
Issue Number3
Pages421 - 422
LanguagesEnglish-United Kingdom
Web of Science Subject CategoriesBiochemical Research Methods; BIOCHEMICAL RESEARCH METHODS; Biochemistry & Molecular Biology; Biotechnology & Applied Microbiology; BIOTECHNOLOGY & APPLIED MICROBIOLOGY; Computer Science; Computer Science, Interdisciplinary Applications; Mathematical & Computational Biology; MATHEMATICAL & COMPUTATIONAL BIOLOGY; Mathematics; Statistics & Probability

Last updated on 2021-22-09 at 02:09