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Workshops

Sequence alignment, clustering, and phylogenetic analysis  
September 21 - October 7 2020

This workshop covers basic concepts and tools for working with DNA and protein sequences, at either single gene or genomic scales. The three-week workshop has three lectures and three hands-on sessions, with topics including sequence alignment, clustering, gene function annotation, and phylogenetics. Each workshop participant will be assigned to a Linux server, and will have three weeks to finish several data analysis projects. (Qi Sun, Cheng Zou)

Machine allocation.

Recordings from this workshop are available online (restricted to workshop participants only).

Workshop Outline  
Session 1 Sep 21 2020 3:30PM - 5:00PM Zoom
Concepts and tools for sequence alignment, including BLAST, PSSM, HMM, and MSA.
Session 2 Sep 23 2020 3:30PM - 5:00PM Zoom
Hands-on session
Session 3 Sep 28 2020 3:30PM - 5:00PM Zoom
Prediction of gene function with Interpro, PFAM, and BLAST2GO; Genome to genome alignment.   Concepts and tools for sequence alignment, including BLAST, PSSM, HMM, and MSA.
Session 4 Sep 30 2020 3:30PM - 5:00PM Zoom
Hands-on session. Extra slides.
Session 5 Oct 5 2020 3:30PM - 5:00PM Zoom
Gene sequence clustering; Orthologous groups and phylogenetic analysis.  
Session 6 Oct 7 2020 3:30PM - 5:00PM Zoom
Hands-on session.  Demo of Linux commands.
 
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