Monthly Archives: April, 2016

  • Data Science class – Project Report

    I took BIOL 419: Data Science for Biologists in Winter 2016. My project group used Jake Heare’s data from https://github.com/jheare/OluridaSurvey2014 for final project. We used various classifiers and visualization to analyze the data. This is the link to final project report: https://docs.google.com/document/d/1QBFr_o29CAuwWlZhbJjLeIPDhjnRwGdHzmOfN4d4b6Y/edit?usp=sharing

  • Analyzing fastq files

    Created another iPython notebook ‘BSMAP-v1′ Used program bsmp-2.74 to compare the files with template genome to observe the methylation pattern. -a is query file -d is reference sequence file (In ‘halfshell’ on OWL) -o is output alignment file (Saved in ‘analyses’ folder in ‘Mrunmayee’ (OWL server)) Others used for creating methratio_out_{i}_b.txt files: -u = report »more