Volume 34 Number 25 June 25 - July 2, 2015
Methods/Tools
Phylogenetically typing bacterial strains from partial SNP genotypes observed from direct sequencing of clinical specimen metagenomic data
Sahl JW, et al. Genome Med, Jun 9, 2015.
Sahl JW, et al. Genome Med, Jun 9, 2015.
'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R package to follow accumulation of within-host mutation in pathogens.
Worby CJ et al. PLoS ONE 2015 (6) e0129745
Worby CJ et al. PLoS ONE 2015 (6) e0129745
A complete bacterial genome assembled de novo using only nanopore sequencing data.
Loman NJ et al. Nat. Methods 2015 Jun 15.
Loman NJ et al. Nat. Methods 2015 Jun 15.
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins.
Croucher NJ et al. Nucleic Acids Res. 2015 Feb 18. (3) e15
Croucher NJ et al. Nucleic Acids Res. 2015 Feb 18. (3) e15
Sequence analysis of lip R: A good method for molecular epidemiology of clinical isolates of Mycobacterium tuberculosis.
Saedi S et al. Curr. Microbiol. 2015 Jun 11.
Saedi S et al. Curr. Microbiol. 2015 Jun 11.
Ultra-large alignments using phylogeny-aware profiles.
Nguyen Nam-Phuong D et al. Genome Biol. 2015 Jun 16. (1) 124
Nguyen Nam-Phuong D et al. Genome Biol. 2015 Jun 16. (1) 124
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