Pubudu Nawarathna
Bioinformatician in Montreal, Canada
A highly responsible, self motivated, progress focused punctual team player graduated from McGill University and with more than 3 years of working experience in Bioinformatics Pipeline development, NGS data analysis and hands-on experience with linux based HPCs.
My Portfolio
1. Bioinformatics Pipeline Development (Python and Bash)
Few of my individual contributions to development of pipelines /protocols for the GenPipes workflow Management System.
- Development of epiQC pipeline to assess the quality of ChIP-Seq signal tracks.
- Technical Documentation for epiQC
- Addition of DiffBind R package to perform differential binding analysis to the ChiP-Seq pipeline.
- R script to run the analysis
- The script generates an automated HTML report using R Markdown render function.
- The script which internally calls the DiffBind.R in order to run the analysis is here.
- A sample output HTML report is here.
- R script to run the analysis
- A Nextflowpipeline for genome scaffolding using Hi-C Seq reads is here.
2. Links to two of my shiny Apps.
- Pathway Enrichment Analysis web application.
- The app is hosted here
- https://github.com/pubudumanoj/pathway_analysis
- Creating ID card for fule pass (A Country Specific App).
- https://github.com/pubudumanoj/fuel_pass
- The app is hosted here.
3. YouTube Demo Videos I created.
4. LinkedIn Learning Certificates
- AWS Essential Training
- Data Wrangling in R
- Artificial Intelligence Foundations: Machine Learning
- Artificial Intelligence Foundations: Thinking Machines
- Machine Learning with Python: Foundations
5. Hacker Rank Certificates