Flapjack--graphical genotype visualization

Iain Milne; Paul Shaw; Gordon Stephen; Micha Bayer; Linda Cardle; William T B Thomas; Andrew J Flavell; David Marshall

doi:10.1093/bioinformatics/btq580

Flapjack--graphical genotype visualization

Iain Milne, Paul Shaw, Gordon Stephen, Micha Bayer, Linda Cardle, William T B Thomas, Andrew J Flavell, David Marshall^*

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

153 Citations (Scopus)

Abstract

SUMMARY: New software tools for graphical genotyping are required that can routinely handle the large data volumes generated by the high-throughput single-nucleotide polymorphism (SNP) platforms, genotyping-by-sequencing and other comparable genotyping technologies. Flapjack has been developed to facilitate analysis of these data, providing real time rendering with rapid navigation and comparisons between lines, markers and chromosomes, with visualization, sorting and querying based on associated data, such as phenotypes, quantitative trait loci or other mappable features.

AVAILABILITY: Flapjack is freely available for Microsoft Windows, Mac OS X, Linux and Solaris, and can be downloaded from http://bioinf.scri.ac.uk/flapjack .

Original language	English
Pages (from-to)	3133-4
Number of pages	2
Journal	Bioinformatics (Oxford, England)
Volume	26
Issue number	24
DOIs	https://doi.org/10.1093/bioinformatics/btq580
Publication status	Print publication - 15 Dec 2010
Externally published	Yes

Keywords

Chromosome Mapping
Computer Graphics
Genotype
Polymorphism, Single Nucleotide
Quantitative Trait Loci
Software

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10.1093/bioinformatics/btq580

Cite this

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title = "Flapjack--graphical genotype visualization",

abstract = "SUMMARY: New software tools for graphical genotyping are required that can routinely handle the large data volumes generated by the high-throughput single-nucleotide polymorphism (SNP) platforms, genotyping-by-sequencing and other comparable genotyping technologies. Flapjack has been developed to facilitate analysis of these data, providing real time rendering with rapid navigation and comparisons between lines, markers and chromosomes, with visualization, sorting and querying based on associated data, such as phenotypes, quantitative trait loci or other mappable features.AVAILABILITY: Flapjack is freely available for Microsoft Windows, Mac OS X, Linux and Solaris, and can be downloaded from http://bioinf.scri.ac.uk/flapjack .",

keywords = "Chromosome Mapping, Computer Graphics, Genotype, Polymorphism, Single Nucleotide, Quantitative Trait Loci, Software",

author = "Iain Milne and Paul Shaw and Gordon Stephen and Micha Bayer and Linda Cardle and Thomas, {William T B} and Flavell, {Andrew J} and David Marshall",

year = "2010",

month = dec,

day = "15",

doi = "10.1093/bioinformatics/btq580",

language = "English",

volume = "26",

pages = "3133--4",

journal = "Bioinformatics (Oxford, England)",

issn = "1367-4803",

publisher = "Oxford University Press",

number = "24",

}

TY - JOUR

T1 - Flapjack--graphical genotype visualization

AU - Milne, Iain

AU - Shaw, Paul

AU - Stephen, Gordon

AU - Bayer, Micha

AU - Cardle, Linda

AU - Thomas, William T B

AU - Flavell, Andrew J

AU - Marshall, David

PY - 2010/12/15

Y1 - 2010/12/15

N2 - SUMMARY: New software tools for graphical genotyping are required that can routinely handle the large data volumes generated by the high-throughput single-nucleotide polymorphism (SNP) platforms, genotyping-by-sequencing and other comparable genotyping technologies. Flapjack has been developed to facilitate analysis of these data, providing real time rendering with rapid navigation and comparisons between lines, markers and chromosomes, with visualization, sorting and querying based on associated data, such as phenotypes, quantitative trait loci or other mappable features.AVAILABILITY: Flapjack is freely available for Microsoft Windows, Mac OS X, Linux and Solaris, and can be downloaded from http://bioinf.scri.ac.uk/flapjack .

AB - SUMMARY: New software tools for graphical genotyping are required that can routinely handle the large data volumes generated by the high-throughput single-nucleotide polymorphism (SNP) platforms, genotyping-by-sequencing and other comparable genotyping technologies. Flapjack has been developed to facilitate analysis of these data, providing real time rendering with rapid navigation and comparisons between lines, markers and chromosomes, with visualization, sorting and querying based on associated data, such as phenotypes, quantitative trait loci or other mappable features.AVAILABILITY: Flapjack is freely available for Microsoft Windows, Mac OS X, Linux and Solaris, and can be downloaded from http://bioinf.scri.ac.uk/flapjack .

KW - Chromosome Mapping

KW - Computer Graphics

KW - Genotype

KW - Polymorphism, Single Nucleotide

KW - Quantitative Trait Loci

KW - Software

U2 - 10.1093/bioinformatics/btq580

DO - 10.1093/bioinformatics/btq580

M3 - Article

C2 - 20956241

SN - 1367-4803

VL - 26

SP - 3133

EP - 3134

JO - Bioinformatics (Oxford, England)

JF - Bioinformatics (Oxford, England)

IS - 24

ER -

Flapjack--graphical genotype visualization

Abstract

Keywords

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