GeoAssign 0.4.1 – Assignment of Origin using Genetic, Phenotypic and Geographic information

GeoAssign 0.4.1

:: DESCRIPTION

GeoAssign is a Web based program assigns test individuals according to their genotypes or metric traits to groups (e.g. country of origin, population of origin) which are defined by reference individuals. Thus, the user needs to upload one data file for the test individuals (“Test file”) and one data file for the reference individuals (“Reference file”). The assignment is done using a nearest neighbour approach.

::DEVELOPER

Bernd Degen

:: SCREENSHOTS

N/a

:: REQUIREMENTS

Web browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Degen B, Blanc-Jolivet C, Stierand K, Gillet E.
A nearest neighbour approach by genetic distance to the assignment of individual trees to geographic origin.
Forensic Sci Int Genet. 2017 Mar;27:132-141. doi: 10.1016/j.fsigen.2016.12.011. Epub 2016 Dec 29. PMID: 28073087.

SLiM 3.3.1 – Forward Population Genetic Simulation

SLiM 3.3.1

:: DESCRIPTION

SLiM (Selection on Linked Mutations) is an evolutionary simulation framework that combines a powerful engine for population genetic simulations with the capability of modeling arbitrarily complex evolutionary scenarios. Simulations are configured via the integrated Eidos scripting language that allows interactive control over practically every aspect of the simulated evolutionary scenarios.

::DEVELOPER

Messer Lab

:: SCREENSHOTS

:: REQUIREMENTS

MacOsX

:: DOWNLOAD

SLiM

:: MORE INFORMATION

Citation

SLiM 3: Forward Genetic Simulations Beyond the Wright-Fisher Model.
Haller BC, Messer PW.
Mol Biol Evol. 2019 Mar 1;36(3):632-637. doi: 10.1093/molbev/msy228.

Pedimap 1.2 – Genetic & Phenotypic Data Visualization

Pedimap 1.2

:: DESCRIPTION

Pedimap is software designed to graphically present genetic information in pedigrees. This information can include phenotypic data, observed marker alleles, calculated Identity by Descent (IBD) probabilities, and (to be added) QTL (Quantitative Trait Loci) allele probabilities.

Pedimap is unique among other things in its capability to present some of this information in relation to genetic linkage maps, hence the name.

::DEVELOPER

Wageningen UR Plant Breeding

:: SCREENSHOTS

:: REQUIREMENTS

Windows

:: DOWNLOAD

Pedimap

:: MORE INFORMATION

Citation
Voorrips RE, Bink MC, van de Weg WE.
Pedimap: Software for visualization of genetic and phenotypic data in pedigrees.
J Hered. 2012 Nov-Dec;103(6):903-7.

PEDSYS 2.0 – Database System for Management of Genetic, Pedigree and Demographic data

PEDSYS 2.0

:: DESCRIPTION

PEDSYS is a database system developed as a specialized tool for management of genetic, pedigree and demographic data. It has been designed principally for use with pedigree analysis of either human or non-human subjects. The system supports integrated collection, management and analysis of constantly evolving data sets by investigators in several different laboratories. Although some of the programs are specialized, many are general enough to be used effectively with data of any sort.

::DEVELOPER

Texas Biomed’s Department of Genetics

:: SCREENSHOTS

:: REQUIREMENTS

Linux/Windows/MacOsX

:: DOWNLOAD

PEDSYS

:: MORE INFORMATION