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2016 05-30-monday-assembly

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http://wurmlab.github.io/genomicscourse/2016-SIB/practicals/

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2016 05-30-monday-assembly

  1. 1. Spring-school in Bioinformatics & Population Genomics (practical sessions) http://bit.ly/genomicscourse
  2. 2. Wifi issues • Reduce # devices unnecessarily connected: • Turn off wifi • Reduce bandwidth.When connected: • turn off Dropbox, Google Drive, OneDrive, iTunes etc. • Keep unnecessary browser windows closed
  3. 3. From reads to reference genome & gene predictions. 1. inspect and clean short (Illumina) reads, 2. perform genome assembly, 3. assess the quality of the genome assembly using simple statistics, 4. predict protein-coding genes, 5. assess quality of gene predictions, 6. assess quality of the entire process using a biologically meaning measure.
  4. 4. vm password: sibuser
  5. 5. http://bit.ly/genomicscourse
  6. 6. It was the season of darkness, it was the spring of hope, it was the winter of despair, we had everything before us, we had nothing before us, we were all going direct to heaven, we were all going direct the other way.
  7. 7. Sequencing technologies?
  8. 8. Assembly approaches?

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