Showing posts with label computational biology. Show all posts
Showing posts with label computational biology. Show all posts

Monday, June 3, 2013

Interval tree and next generation sequencing


Recently I was working with some genome data on my leisure project. I had some huge number of coordinate of gene and various transcription element . The task was to fetch elements name  between the coordinate given by the required inputs range of the gene.

Though, the above problem challenge can be easily solved, using various approaches, but I wanted to have it best optimized way. Little R&D and small discussion with my programer cousin Najeeb,  I came across a data structure called "interval tree" .I decided to give a try and begin my exploration for this data structure.

Wednesday, May 1, 2013

What is the easiest language to start with for a computational biologist?

Most of the student have this question to me multiple times which is the best and the easiest language for a computational biologist to start learning programming.
Common suggestion of the old programmer will be in
  • C
  • Perl
  • Python
  • Java
  • R