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. 2018 Jun 24;6(6):e01159.
doi: 10.1002/aps3.1159. eCollection 2018 Jun.

iMEC: Online Marker Efficiency Calculator

Ali Amiryousefi  1   2 , Jaakko Hyvönen  1   2 , Péter Poczai  2
Affiliations

iMEC: Online Marker Efficiency Calculator

Ali Amiryousefi et al. Appl Plant Sci. .

Abstract

Premise of the study: To accurately design plant genetic studies, the information content of utilized markers and primers must be calculated. Plant genotyping studies should take into account the efficiency of each marker system by calculating different parameters to find the optimal combination of primers. This can be problematic because there are currently no easily accessible applications that can be used to calculate multiple indices together.

Methods and results: The program Online Marker Efficiency Calculator (iMEC) was developed using R for the simple computation of seven polymorphism indices (heterozygosity index, polymorphism information content, discriminating power, effective multiplex ratio, marker index, arithmetic mean heterozygosity, and resolving power). These indices are based on dominant and codominant DNA fingerprinting markers, thus allowing comparison and selection of optimal genetic markers for a given data set.

Conclusions: iMEC simplifies the calculation of diverse indices for the marker of choice to better enable researchers to measure polymorphism information for individual markers. The program is available at https://irscope.shinyapps.io/iMEC/.

Keywords: DNA band; arbitrarily amplified dominant markers (AADs); molecular marker; multi‐locus fingerprinting; polymorphism.

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