Best practices for evaluating single nucleotide variant calling methods for microbial genomics
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The implications of whole-genome sequencing in the control of tuberculosisA genomic perspective on hybridization and speciationAssuring the Quality of Next-Generation Sequencing in Clinical Microbiology and Public Health Laboratories.Choice of reference-guided sequence assembler and SNP caller for analysis of Listeria monocytogenes short-read sequence data greatly influences rates of error.Refined analyses suggest that recombination is a minor source of genomic diversity in Pseudomonas aeruginosa chronic cystic fibrosis infectionsTransmission Bottleneck Size Estimation from Pathogen Deep-Sequencing Data, with an Application to Human Influenza A VirusProspective Whole-Genome Sequencing Enhances National Surveillance of Listeria monocytogenes.PEPR: pipelines for evaluating prokaryotic references.Reliable Detection of Herpes Simplex Virus Sequence Variation by High-Throughput Resequencing.Comparative pathogenomics of Clostridium tetaniReference standards for next-generation sequencing.A Primer on Infectious Disease Bacterial GenomicsComparative analysis of de novo assemblers for variation discovery in personal genomes.NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats.A brief primer on genomic epidemiology: lessons learned from Mycobacterium tuberculosis.Importance of Molecular Methods to Determine Whether a Probiotic is the Source of Lactobacillus Bacteremia.SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology.Mapping-free variant calling using haplotype reconstruction from k-mer frequencies.Microbial sequence typing in the genomic era.Impact of the choice of reference genome on the ability of the core genome SNV methodology to distinguish strains of Salmonella enterica serovar Heidelberg.Comparative genomics reveals new single-nucleotide polymorphisms that can assist in identification of adherent-invasive Escherichia coli.Beaver Fever: Whole-Genome Characterization of Waterborne Outbreak and Sporadic Isolates To Study the Zoonotic Transmission of Giardiasis.Recognition of the polycistronic nature of human genes is critical to understanding the genotype-phenotype relationship.Revisiting Francisella tularensis subsp. holarctica, Causative Agent of Tularemia in Germany With Bioinformatics: New Insights in Genome Structure, DNA Methylation and Comparative Phylogenetic Analysis.A review of somatic single nucleotide variant calling algorithms for next-generation sequencing data.geck: trio-based comparative benchmarking of variant callsWhole genome sequencing for investigations of meningococcal outbreaks in the United States: a retrospective analysisWhole-Genome Sequencing and Bioinformatic Analysis of Isolates from Foodborne Illness Outbreaks of Campylobacter jejuni and Salmonella enterica
P2860
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P2860
Best practices for evaluating single nucleotide variant calling methods for microbial genomics
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name
Best practices for evaluating ...... methods for microbial genomics
@ast
Best practices for evaluating ...... methods for microbial genomics
@en
Best practices for evaluating ...... methods for microbial genomics
@nl
type
label
Best practices for evaluating ...... methods for microbial genomics
@ast
Best practices for evaluating ...... methods for microbial genomics
@en
Best practices for evaluating ...... methods for microbial genomics
@nl
prefLabel
Best practices for evaluating ...... methods for microbial genomics
@ast
Best practices for evaluating ...... methods for microbial genomics
@en
Best practices for evaluating ...... methods for microbial genomics
@nl
P2093
P2860
P356
P1476
Best practices for evaluating ...... methods for microbial genomics
@en
P2093
James M Schupp
Jason W Sahl
Jayne B Morrow
Justin M Zook
Marc L Salit
Rebecca E Colman
Steven P Lund
P2860
P356
10.3389/FGENE.2015.00235
P407
P577
2015-01-01T00:00:00Z