Single Molecule & Spatial Sequencing: slow5tools, f5c, and squigualiser скачать в хорошем качестве

Single Molecule & Spatial Sequencing: slow5tools, f5c, and squigualiser

Instructors: Hasindu Gamaarachchi Lecture Summary: This lecture reviews single-molecule nanopore sequencing analysis, with a high level chalk talk representation, followed by a live coding demonstration. He demonstrates the use of slow5tools, slow5-dorado, f5c [resquiggle and eventalign], and squigualiser to visualize individual nanopore sequences and alignments. Lecturer Biography: Dr. Hasindu Gamaarachchi completed his PhD in Computer Science and Engineering at University of New South Wales Sydney. He is currently a lecturer at the same institution. His group's developed the SLOW5/BLOW5 format, along with associated tools slow5tools, f5c, and squigualiser. His contributions have enabled nanopore sequencing to become a part of the open science movement. Course Summary: Sequencing-based research has become the dominant investigative practice within the biological sciences. Single-Molecule & Spatial Sequencing: Methods & Applications, responds to this development by providing a hands-on and in-depth introduction to sequencing for first year PhD and MD-PhD students, from Sanger to third-generation technologies. Utilizing an alternating lecture-lab schedule, students are introduced to fundamental basic principles of DNA & RNA science, progressing to cutting-edge library preparation and sequencing analysis techniques with Illumina and Nanopore technologies. Students will have the opportunity to perform direct-RNA sequencing samples on research samples, and experience first-hand the ethical implications of this data. Relevant concepts in biology and computer science will be addressed. GitHub Link: https://github.com/Theo-Nelson/SMS-co... Relevant Packages / Papers: https://github.com/hiruna72/squigualiser https://github.com/hasindu2008/f5c https://github.com/hasindu2008/slow5t... Course website: https://physiology.med.cornell.edu/fa... X:   / mason_lab