Collection of Tools and Algorithms in Bioinformatics

• Equations/Algorithms

  • Likelihood-Ratio Test
  • Genetic Algorithm Implementation for Optimizing Component Selection
  • Pseudo-Random Number Generator using Linear Feedback Shift Register (LFSR)
  • Quantum Mechanics Calculation for Infinite Potential Well

• Tools

  • Get Amino Acid from Consensus File
  • Plot Conservation from Multiple Conservation Files in Box Plot

• Sequence Alignment

  • Global Alignment using Dynamic Programming
  • Global Alignment in Linear Space using Divide and Conquer (Hirschberg's Algorithm)
  • Local Alignment in Linear Space using Divide and Conquer
  • Block Alignment using Divide and Conquer (Look Up Table)

• Clustering

  • Hierarchical Agglomerative Clustering using Single-Linkage Method

• Data Mining

  • Data Mining using NLTK (Natural Language Toolkit) for Proteomics

• Machine Learning

  • Determination of the Starting Exon using Markov Model