Brian Haas edited this page Sep 13, 2017 · 7 revisions

Introduction to Transcriptomics

Welcome to the workshop on transcriptomics at the Ragon Institute!

We will be following the tutorials listed in the panel on the right, first targeting de novo transcriptome assembly using Trinity, and then genome-guided transcriptome assembly using StringTie or Trinity in genome-guided mode.

Transcriptome sequencing technologies

Illumina sequencing by synthesis

https://www.youtube.com/embed/fCd6B5HRaZ8

PacBio SMRT Sequencing

https://www.youtube.com/embed/v8p4ph2MAvI

Oxford Nanopore Sequencing

https://www.youtube.com/embed/GUb1TZvMWsw

Conventions used in tutorials

command executions

cmd to run

% cmd to execute

and

% sometimes commands are long and will go \
    across several lines

and results

.

results shown in blocks below the commands, after a '.' marker.

Viewing results via apache link

port 8082

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