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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University Work Log 02/14 Liang Bo Wang 2013.12  Slides by Liang Bo Wang http://www.rafael-araujo.com/

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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University Some Thoughts on RNA-Seq Practices and Virtual Machine Using •  Thanks for everyone’s hard work in advance. •  RNA-Seq needs standard samples, which is now collected by 于晴(<- she is in charge) •  Genome reference (sequence, annotation, … basically everything) can be found on Illumina iGenome (or `/data/iGenome` on 171) 2013.12  Slides by Liang Bo Wang iga11moon11wave / Twitter

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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University Thoughts on RNA-Seq … (cont’d) •  It’s tedious in the beginning, but this is part of the practice, please always try yourself first. –  Because most of the time, we are trying. –  The goal is to make everyone knows how to debug, understands the error message, and googles. So you will not stop doing when your program stops. –  Try to log everything since you need to repeat a lot 2013.12  Slides by Liang Bo Wang

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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University Thoughts on Virtual Machine … (cont’d) •  I only provide a very clean installation, so you might need some (translation: a lot of) configuration. •  One might install their own tools on VM and might plan to re-run the pipeline on 171/173 –  Remember how you install them, so I can run the same commands without looking its documentation. For example, $ yum install strange-deps-dev $ wget http://dont.like.valentine/src/mytool_v5.56.6.tar.gz $ tar zxvf mytool_v5.56.6.tar.gz; cd mytool $ make $ sudo make install 2013.12  Slides by Liang Bo Wang

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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University 2013.12  Slides by Liang Bo Wang UI Design … Working on, please wait

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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University 2013.12  Slides by Liang Bo Wang bjornmeansbear / Flickr / CC-BY-SA

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Bioinformatics and Biostatistics Core, NTU Center of Genomic Medicine, National Taiwan University 2013.12  Slides by Liang Bo Wang adamjacksonbell / Flickr Anyway… Happy Valentine’s Day!