/bioinformatics-DD2404

DD2404 Applied Bioinformatics Assignments -H18 at KTH

Primary LanguagePython

Royal Institute of Technology - KTH

Applied Bioinformatics DD2404 HT18

Lab Assignments:

LAB1: Basic Python

  • Random DNA sequences
  • Reading Stockholm files
  • Re-formatting sequences
  • Translate DNA Basic Python: Advanced assignment 1

LAB2: More Python

  • Download genomes
  • Compute GC content
  • Comparing base composition
  • Compatibility More Python: Advanced assignment 2

LAB3: Python with modules

  • Translate with Biopython
  • A motif filter
  • KLEEK aligned?
  • Remote Blast
  • Blast parsing Python with modules: Advanced assignment 3

LAB4: Databases

  • BioMart
  • Your own database
  • Querying Ensembl Databases: Advanced assignment 4

Final Project:

Protein Multialignment Noise Reduction [link]