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undergraduate thesis
De novo sastavljanje genoma vođeno referencom
2019. urn:nbn:hr:168:127628
Bakić, Sara
University of Zagreb
Faculty of Electrical Engineering and Computing

Cite this document

Bakić, S. (2019). De novo sastavljanje genoma vođeno referencom (Undergraduate thesis). Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing. Retrieved from https://urn.nsk.hr/urn:nbn:hr:168:127628

Bakić, Sara. "De novo sastavljanje genoma vođeno referencom." Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, 2019. https://urn.nsk.hr/urn:nbn:hr:168:127628

Bakić, Sara. "De novo sastavljanje genoma vođeno referencom." Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, 2019. https://urn.nsk.hr/urn:nbn:hr:168:127628

Bakić, S. (2019). 'De novo sastavljanje genoma vođeno referencom', Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, accessed 28 January 2025, https://urn.nsk.hr/urn:nbn:hr:168:127628

Bakić S. De novo sastavljanje genoma vođeno referencom [Undergraduate thesis]. Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing; 2019 [cited 2025 January 28] Available at: https://urn.nsk.hr/urn:nbn:hr:168:127628

S. Bakić, "De novo sastavljanje genoma vođeno referencom", Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, Zagreb, 2019. Available at: https://urn.nsk.hr/urn:nbn:hr:168:127628

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Metadata
TitleDe novo sastavljanje genoma vođeno referencom
Title (english)Task: Reference-Guided de novo Genome Assembly
AuthorSara Bakić
MentorMile Šikić (mentor)
Committee memberMile Šikić (predsjednik povjerenstva)
Committee memberKrešimir Križanović (član povjerenstva)
Committee memberRobert Vaser (član povjerenstva)
GranterUniversity of Zagreb
Faculty of Electrical Engineering and Computing
Zagreb
Defense date and country2019-07-12, Croatia
Scientific / art field,
discipline and subdiscipline		TECHNICAL SCIENCES
Computing
Abstract
De novo sastavljanje genoma jedan je od najkompleksijih problema u bioinformatici. Brojni su problemi prilikom sastavljanja genoma, uzrokovani, kako biološkim specifičnostima, tako i greškama u procesu sekvenciranja. Probleme stvaraju takozvana ponavljajuća i kimerna očitanja. U ovom radu prikazano je kako detektiranje kimernih i ponavljajućih očitanja uz prikladna postupanja s njima pomaže ispravnom sastavljanju genoma. Prikazane su poteškoće na koje se nailazi prilikom sastavljanja genoma te kako uz postojeće alate minimap2 i Ra i ispravnu detekciju kimernih i ponavljajućih očitanja što bolje sastaviti genom te rezultati testiranja sastavljenosti genoma. Osim toga, pojašnjeni su i formati korištenih podataka te temeljne značajke korištenih alata.
Abstract (english)
De novo genome assembly is one of the most complex problems in Bioinformatics. There are many problems, either caused by biological specificities or mistakes made during sequencing process, that complicate de novo genome assembly process. The problems are mainly caused by chimeric and repeating reads. This thesis describes how detecting and annotating chimeric and repeating reads helps the assembly process. Typical issues that occur during the assembly process and how successful existing tools Ra and minimap2 with the detection of chimeric and repeating reads assembly the reads are shown. Besides that, thesis describes file formats used in this work and thorough features of used tools.
Keywords
Keywords (english)
Languagecroatian
URN:NBNurn:nbn:hr:168:127628
Study programmeTitle: Computing
Study programme type: university
Study level: undergraduate
Academic / professional title: sveučilišni/a prvostupnik/ prvostupnica (baccalaureus/baccalaurea) inženjer/inženjerka računarstva (sveučilišni/a prvostupnik/ prvostupnica (baccalaureus/baccalaurea) inženjer/inženjerka računarstva)
Type of resourceText
File originBorn digital
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Created on2020-01-07 16:25:22