PT  - JOURNAL ARTICLE
AU  - Dengfeng Guan
AU  - Bo Liu
AU  - Yadong Wang
TI  - deSPI: efficient classification of metagenomic reads with lightweight de Bruijn graph-based reference indexing
AID  - 10.1101/080200
DP  - 2016 Jan 01
TA  - bioRxiv
PG  - 080200
4099  - http://biorxiv.org/content/early/2016/10/12/080200.short
4100  - http://biorxiv.org/content/early/2016/10/12/080200.full
AB  - Summary In metagenomic studies, fast and effective tools are on wide demand to implement taxonomy classification for upto billions of reads. Herein, we propose deSPI, a novel read classification method that classifies reads by recognizing and analyzing the matches between reads and reference with de Bruijn graph-based lightweight reference indexing. deSPI has faster speed with relatively small memory footprint, meanwhile, it can also achieve higher or similar sensitivity and accuracy.Availability the C++ source code of deSPI is available at https://github.com/hitbc/deSPIContact ydwang{at}hit.edu.cnSupplementary information Supplementary data are available at Bioinformatics online.