Bc. Ivan Vanát

Master's thesis

Development, modularization and tuning of a program for repetitive sequence detection in plant genomes

Development, modularization and tuning of a program for repetitive sequence detection in plant genomes
Abstract:
TE-greedy-nester je nástroj schopný identifikovať LTR retrotranspozóny, využívajúc de-novo prístup a hladný algoritmus. V porovnaní s konkurenciou vie identifikovať aj fragmentované elementy. V tejto práci, predstavujeme vylepšenú verziu nástroja, ktorá dokáže identifikovať viacero typov repetetívnych sekvencií. Nástroj je teraz možné jednoducho rozšíriť o nové moduly. Program disponuje štyrma predimplementovanými …more
Abstract:
TE-greedy-nester is a tool that is capable of identification of long terminal retrotransposons utilizing de-novo identification and a greedy algorithm. Compared to most of its competitors, it can also detect fragmented elements. In this work, we present an improved version of the tool that can now identify several types of repetitive sequences. It has undergone a complete redesign and can now be easily …more
 

Keywords

TE-greedy-nester LTR retrotransposons nesting repetitive elements detection mite tandem repeat
 
Language used: English
Date on which the thesis was submitted / produced: 13. 12. 2022
Identifier: https://is.muni.cz/th/hoy1k/

Thesis defence

  • Date of defence: 26. 1. 2023
  • Supervisor: Ing. Matej Lexa, Ph.D.
  • Reader: Mgr. Monika Čechová, Ph.D.

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Institution archiving the thesis and making it accessible: Masarykova univerzita, Fakulta informatiky
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Masaryk University

Faculty of Informatics

Master programme / field:
Software systems and services management / Services development management

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