Bioinformatics for Biotechnology students

This book is written with KTH’s course CB2442, Bioinformatics in mind. Some of the material has been generated with ChatGPT.

• Bioinformatics for Biotechnology Students
• Introduction to Alignments
  • Introduction to Sequence Alignments
  • Representations of pairwise alignments
• Algorithms for Pairwise Alignments
  • Needleman-Wunsch Algorithm: Global Alignment
  • Code: Global pairwise alignments
  • Smith-Waterman Algorithm: Local Alignment
  • Code: Local Pairwise alignment
  • Semi-global Alignment
  • Code: Semi-global pairwise alignment
• Protein Sequence Alignment
  • Aligning Proteins
  • Code: Aligning amino acid sequences
• Multiple Sequence Alignments
  • Multiple Sequence Alignments
  • Code for Progressive multiple sequence alignments
  • Sequence Logos
  • Profile Hidden Markov Models
  • Code describing the Viterbi algorithm
• Sequence Retrieval
  • The BLAST Algorithm for Sequence Retrieval
  • Code for BLAST-styled queries

This work by Lukas Käll is licensed under CC BY 4.0