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National Repository of Grey Literature 2 records found  Search took 0.00 seconds. 
Tools for microbial community analysis using high-throughput amplicon sequencing data
 Prášilová, Alžběta ; Větrovský, Tomáš (advisor) ; Novotný, Marian (referee)
Amplicon high-throughput sequencing is currently the most widely used technique to investigate complex microbial communities. In order to analyze amplicon sequencing data, specialized software and algorithms are required to turn raw sequencing data into biologically meaningful information. This thesis serves as an overview of the current pos- sibilities and an introduction to microbial community analysis. It provides a comparison of the most widely used bioinformatics pipelines as well as a newer pipeline SEED2 and a foundation for users to make a decision based on their preferences. 1
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Variant calling using local reference-helped assemblies
 Dráb, Martin ; Daněček, Petr (advisor) ; Hoksza, David (referee)
Despite active development during past years, the task of sequencing a genome still remains a challenge. Our current technologies are not able to read the whole genome in one piece. Instead, we shatter the target genome into a large amounts of small pieces that are then sequenced separately. The process of assembling these small pieces together, in order to obtain sequence of the whole genome, is painful and rsource-consuming. Multiple algorithms to solve the assembly problem were developed. This thesis presents yet another assembly algorithm, based on the usage of de Bruijn graphs, and focusing on sequencing short genome regions. The algorithm is compared to well-known solutions in the field. 1
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