Essays about: "assembly sequencing"

Showing result 1 - 5 of 42 essays containing the words assembly sequencing.

1. 1. Multiple-Emitter Super-resolution Imaging using the Alternating Descent Conditional Gradient Method

   University essay from Lunds universitet/Beräkningsbiologi och biologisk fysik - Genomgår omorganisation; Lunds universitet/Institutionen för astronomi och teoretisk fysik - Genomgår omorganisation

   Author : Dolev Illouz; [2023]
   Keywords : super-resolution; alternating descent conditional gradient method; ADCG; multiple-emitter localization; nanoscale imaging; single molecule tracking; Physics and Astronomy;

   Abstract : This thesis examines the state-of-the-art 2D super-resolution technique alternating descent conditional gradient (ADCG) method's ability to accurately localize fluorophores in diffraction-limited single molecule images (SMI) and analyze the impact of pre-processing and post-processing modules on ADCG's fluorophore localization. A synthetic dataset obtained from the 2013 Grand Challenge localization microscopy and a temporally linked dataset obtained from an unpublished set of Optical DNA mapping experiments performed by Jonathan Jeffet at the NanoBioPhotonix Lab at Tel-Aviv University were initially segmented to extract their noise parameters. READ MORE

3. 2. SubKluster: Novel method to bin scaffolds from cereal genomes into subgenomes using substring frequency analysis

   University essay from Lunds universitet/Examensarbeten i bioinformatik

   Author : Victor Kalbskopf; [2023]
   Keywords : Biology and Life Sciences;

   Abstract : The genome of the Belinda variety of the hexaploid oat (Avena sativa) has recently been sequenced and assembled. This project aims to improve the assembly by clustering the thousands of scaffolds into their three ancestral subgenomes using Principle Component Analysis (PCA) of kmer and repeat-element frequencies. READ MORE

4. 3. Quality Control and Differential Analysis Tools for Sequencing Data with User-Friendly GUI Implementation Based on PySimpleGUI

   University essay from Högskolan i Skövde/Institutionen för biovetenskap

   Author : Mohit Bachan Singh Panwar; [2023]
   Keywords : ;

   Abstract : The paper details the development, implementation and assessment of a suite of bioinformatics tools, namely Adapter Trimmer, Quality Trimmer, Quality Filter  and two Differential Expression Analysis (DEA) tools based on existing libraries like edgeR via rpy2 and PyDESeq2. All these tools are unified within a consolodated graphical user interface (GUI), underscoring the focus on accessibility and user-centric design. READ MORE

5. 4. Beyond the Bubbles : a Study of Fungal Diversity and Gushing in Beer Production

   University essay from SLU/Dept. of Forest Mycology and Plant Pathology

   Author : Alexander Pettersson; [2023]
   Keywords : Fusarium Head Blight; Fungal communities; Metabarcoding; Amplicon sequencing Malting barley; Gushing; Pink kernels; Random forests;

   Abstract : Gushing, violent and spontaneous over-foaming of beer, is a well-known quality reducing phenomenon encountered in the brewing industry. The present study investigated the impact of fungal contamination in barley grains, specifically focusing on gushing and the occurrence of pink kernels. READ MORE

6. 5. Comparison of quality performance of whole genome sequencing analysis pipelines for foodborne pathogens

   University essay from Uppsala universitet/Molekylär evolution

   Author : Chelsea Ramsin; [2022]
   Keywords : ;

   Abstract : Campylobacter is the leading cause of gastroenteritis worldwide and in Sweden there areofficial programs for the surveillance of the bacteria. One important objective with foodbornepathogen surveillance is molecular typing. READ MORE