@article{Ainsworth:2016:nar/gkw1248,
author = {Ainsworth, D and Sternberg, MJE and Raczy, C and Butcher, SA},
doi = {nar/gkw1248},
journal = {Nucleic Acids Research},
pages = {1649--1656},
title = {k-SLAM: Accurate and ultra-fast taxonomic classification and gene identification for large metagenomic datasets},
url = {http://dx.doi.org/10.1093/nar/gkw1248},
volume = {45},
year = {2016}
}

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TY  - JOUR
AB  - k-SLAM is a highly e cient algorithm for the characterisa-tion of metagenomic data.  Unlike other ultra-fast metage-nomic classi ers, full sequence alignment is performed allow-ing for gene identi cation and variant calling in addition toaccurate  taxonomic  classi cation.   Ak-mer  based  methodprovides  greater  taxonomic  accuracy  than  other  classi ersand a three orders of magnitude speed increase over align-ment based approaches.  The use of alignments to  nd vari-ants and genes along with their taxonomic origins enablesnovel strains to be characterised.  k-SLAM's speed allows afull  taxonomic  classi cation  and  gene  identi cation  to  betractable  on  modern  large  datasets.    A  pseudo-assemblymethod is used to increase classi cation accuracy by up to40% for species which have high sequence homology withintheir genus.
AU  - Ainsworth,D
AU  - Sternberg,MJE
AU  - Raczy,C
AU  - Butcher,SA
DO  - nar/gkw1248
EP  - 1656
PY  - 2016///
SN  - 1362-4962
SP  - 1649
TI  - k-SLAM: Accurate and ultra-fast taxonomic classification and gene identification for large metagenomic datasets
T2  - Nucleic Acids Research
UR  - http://dx.doi.org/10.1093/nar/gkw1248
UR  - http://hdl.handle.net/10044/1/43100
VL  - 45
ER  - 

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