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Pedimap specifications

Information


Unique identifier OMICS_00214
Name Pedimap
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Roeland E. Voorrips

Publication for Pedimap

Pedimap citations

 (6)
library_books

Clarifying sub genomic positions of QTLs for flowering habit and fruit quality in U.S. strawberry (Fragaria×ananassa) breeding populations using pedigree based QTL analysis

2017
PMCID: 5676184
PMID: 29138689
DOI: 10.1038/hortres.2017.62

[…] SA) for genotyping with the Axiom IStraw90 SNP array. Genotypic data acquired from Affymetrix, Inc. was recoded with GenomeStudioConverter to convert it into the software input file format needed for Pedimap version 1.2 and FlexQTL version 099130. Genetic positions of 10 560 filtered PolyHighResolution and NoMinorHomozygous SNP markers identified in Bassil and Davis et al. were obtained from a hig […]

library_books

Deciphering the genetic control of fruit texture in apple by multiple family based analysis and genome wide association

2017
J Exp Bot
PMCID: 5441909
PMID: 28338805
DOI: 10.1093/jxb/erx017

[…] groups of plant materials were employed. The first was represented by a pedigree composed of 13 parental lines and six full-sib populations (for a total of 416 individuals). The scheme generated with PediMap (; Supplementary Fig. S1; Supplementary Table S1 at JXB online) shows the maternal and paternal descendants from founders to progeny. The second group was represented by a collection of 387 ap […]

library_books

PediHaplotyper: software for consistent assignment of marker haplotypes in pedigrees

2016
PMCID: 4977329
PMID: 27547106
DOI: 10.1007/s11032-016-0539-y

[…] produced, including (1) the phased multi-allelic haploblock genotypes for QTL mapping, in a generic tab-delimited text file format or as a set of files suitable for import into FlexQTL™, (2) files in Pedimap (Voorrips et al. ) format for visualizing the flow of marker alleles and haploblock alleles through the pedigree, including the phenotypic data if these were supplied and (3) diagnostic files. […]

library_books

Accuracy and responses of genomic selection on key traits in apple breeding

2015
PMCID: 4688998
PMID: 26744627
DOI: 10.1038/hortres.2015.60

[…] the parents of progenies in the training population (). The pedigree relationships among the parents and FS families of the training and application populations were abundant and were visualized with Pedimap software as shown in . […]

library_books

Mixed model approach for IBD based QTL mapping in a complex oil palm pedigree

2015
BMC Genomics
PMCID: 4608140
PMID: 26472667
DOI: 10.1186/s12864-015-1985-3

[…] can. Best linear unbiased predictors (BLUP) were obtained as predictors of additive value of each individual at a given QTL. BLUPs were plotted on the pedigree graph grouping all tested parents using Pedimap software [].All linear mixed effect models were estimated by REML using the R-ASReml package (Butler et al., 2009) for R []. […]

library_books

Microsatellite allele dose and configuration establishment (MADCE): an integrated approach for genetic studies in allopolyploids

2012
BMC Plant Biol
PMCID: 3338383
PMID: 22340438
DOI: 10.1186/1471-2229-12-25

[…] nd breeding lines. Finally, we demonstrate the value of this method for examining the flow of alleles over multi-generation pedigrees through the Identity-By-Descent concept using the FlexQTL™ [] and Pedimap [] software packages. […]

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Pedimap institution(s)
Wageningen University and Research Centre, Plant Breeding, Wageningen, Netherlands

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