title: VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data.
abstract: CONCLUSIONS
  There is an immediate need for tools to both analyse and visualize in real-time single-nucleotide polymorphisms, insertions and deletions, and other structural variants from new sequence file formats. We have developed VarB software that can be used to visualize variant call format files in real time, as well as identify regions under balancing selection and informative markers to differentiate user-defined groups (e.g. populations). We demonstrate its utility using sequence data from 50 Plasmodium falciparum isolates comprising two different continents and confirm known signals from genomic regions that contain important antigenic and anti-malarial drug-resistance genes.
  
  
  METHODS
  The C++-based software VarB and user manual are available from www.pathogenseq.org/varb.
  
  
  BACKGROUND
  taane.clark@lshtm.ac.uk
authors.affiliation: Faculties of Epidemiology & Population Health and Infectious & Tropical Diseases, London School of Hygiene and Tropical Medicine, London WC1E 7HT, UK.
authors.forename: Mark D
authors.initials: MD
authors.lastname: Preston
authors.forename: Magnus
authors.initials: M
authors.lastname: Manske
authors.forename: Neil
authors.initials: N
authors.lastname: Horner
authors.forename: Samuel
authors.initials: S
authors.lastname: Assefa
authors.forename: Susana
authors.initials: S
authors.lastname: Campino
authors.forename: Sarah
authors.initials: S
authors.lastname: Auburn
authors.forename: Issaka
authors.initials: I
authors.lastname: Zongo
authors.forename: Jean-Bosco
authors.initials: JB
authors.lastname: Ouedraogo
authors.forename: Francois
authors.initials: F
authors.lastname: Nosten
authors.forename: Tim
authors.initials: T
authors.lastname: Anderson
authors.forename: Taane G
authors.initials: TG
authors.lastname: Clark
mesh_terms: D014644:Genetic Variation; D018503:Genome, Protozoan; D059014:High-Throughput Nucleotide Sequencing; D054643:INDEL Mutation; D010963:Plasmodium falciparum / Q000235:genetics* / Q000302:isolation & purification; D020641:Polymorphism, Single Nucleotide; D017422:Sequence Analysis, DNA; D012984:Software