MareyMap statistics

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Associated diseases

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MareyMap specifications

Information


Unique identifier OMICS_22167
Name MareyMap
Alternative name MareyMap Online
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Medium
Version 1.3.4
Requirements
methods, stats, R(≥2.10), graphics, utils, grDevices, tools, tcltk, tkrplot
Maintained Yes

Subtool


  • MareyMapGUI

Download


Versioning


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Documentation


Maintainers


  • person_outline Gabriel Marais <>
  • person_outline Aurélie Siberchicot <>
  • person_outline Laurent Guéguen <>

Additional information


http://lbbe-shiny.univ-lyon1.fr/MareyMapOnline/

Information


Unique identifier OMICS_22167
Name MareyMap
Alternative name MareyMap Online
Interface Web user interface
Restrictions to use None
Input data A Marey map.
Output data A local recombination rate estimates.
Programming languages R
Computer skills Basic

Subtool


  • MareyMapGUI

Documentation


Maintainers


This tool is not maintained anymore.

Additional information


http://lbbe-shiny.univ-lyon1.fr/MareyMapOnline/

Publications for MareyMap

MareyMap in publications

 (15)
PMCID: 5703465
PMID: 29176878
DOI: 10.1371/journal.pone.0188682

[…] the genome []. after determining the physical positions of the markers and then combining the genetic positions, the local recombination rates were estimated along each of the 26 chromosomes using mareymap []. the relationship of genetic and physical positions was demonstrated by a scatter plot with the markers’ genetic positions (cm) versus physical positions (mb). the recombination map […]

PMCID: 5909467
PMID: 29186379
DOI: 10.1093/dnares/dsx043

[…] the corresponding positions between the linkage map and the genome assemblies. genetic positions of the markers were interpolated using the cubic spline method with default parameters settings in mareymap version 1.3.3., ssr markers has been used in mas because of multi allelic behavior, easy handling and low cost. information on their polymorphism, genotyping quality and genetic positions […]

PMCID: 5850837
PMID: 29126199
DOI: 10.1093/molbev/msx284

[…] position. the middle physical position of each genetic marker was used to represent its physical map position. the genetic (cm) and physical map (bp) of each marker were then loaded onto the mareymap package () to estimate the recombination rate (cm/mb). the genetic versus physical map were plotted for each chromosome and visually inspected to remove anomalous genetic markers, leading […]

PMCID: 5663088
PMID: 29084572
DOI: 10.1186/s13059-017-1326-8

[…] window were used to create a marey map with the respective position in centimorgans. recombination rate was then interpolated onto 100-kb windows using the cubic spline function from the r package mareymap []., pcr primers were designed to surround ten crossovers identified collectively from the w4m6 and dmrh populations (additional file : table s3). pcr was performed for 36 cycles of heat […]

PMCID: 5675608
PMID: 28903982
DOI: 10.1534/g3.117.300264

[…] qtl positions were generated in mapchart 2.30 ()., concordance between the linkage maps generated in this study and the potato reference genome (pgsc version 4.03 pseudomolecules) was evaluated in mareymap r package version 1.3.1 (). plots of the genetic position (centimorgan) with the physical position (megabase) of each snp marker in each chromosome were generated using the graphical […]


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MareyMap institution(s)
Laboratoire de Biométrie et Biologie Evolutive (UMR 5558), CNRS/Université Lyon 1, Villeurbanne, France; Laboratory of Plant and Cell Physiology (UMR 5168), CNRS/CEA/INRA/Univ. Grenoble Alpes, Grenoble, France.

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