Bioinformatics Platform

Description:
Taking a workshop on the terminal/Unix and bioinformatics file formats is essential for anyone working in bioinformatics. Mastering the command line allows for efficient data handling, automation, and the ability to run a wide array of bioinformatics tools. Understanding key file formats like FASTA, FASTQ, BAM, and BED is crucial for processing genomic data, as these are the backbone of bioinformatics workflows. By learning these skills, you gain the ability to manipulate large datasets, customize pipelines, and increase productivity in your research.

Objectives:

• Learn to use the terminal interface
• Data manipulation through the terminal
• Introduction to file fomarts used in bioinformatics (fastq, bam, bed, vcf...)
• Be able to write and run a simple script
• Introduction to Alliance Canada servers, connexion ssh, slurm management

Prerequisites:
It is an introduction course. No prerequisites are required. You need to bring your own laptop and to have a wifi connection at the RI.

Description:
An introduction to Python workshop is invaluable for anyone entering the field of bioinformatics. Python is a versatile language widely used for data analysis, automation, and developing bioinformatics tools. With its rich ecosystem of libraries like Biopython, Pandas, and NumPy, you can efficiently process, analyze, and visualize biological data. Learning Python enables you to create custom scripts, handle large datasets, and streamline complex bioinformatics workflows, empowering you to tackle diverse challenges in genomics, proteomics, and beyond.

Objectives:

• Learn basic Python syntax, including variables, data types, and control flow
• Understand how to work with pandas for data manipulation and analysis
• Perform basic data analysis and aggregations on a dataset
• Visualize data using matplotlib and seaborn
• Apply concepts through hands-on exercises with a synthetic clinical dataset

Description:
An introduction to R workshop is essential for anyone pursuing bioinformatics, as R is a powerful tool for statistical analysis and data visualization. Widely used in genomics and other biological fields, R offers specialized packages like Bioconductor for analyzing high-throughput data. Learning R enables you to efficiently manipulate large datasets, perform complex statistical tests, and create insightful visualizations. By mastering R, you gain the ability to streamline your bioinformatics workflows and uncover meaningful biological insights from your data.

Objectives:

• Understand R's basic data types and structures
• Use loops for repetitive tasks
• Import a dataset and manipulate its data
• Generate basic plots for data visualization

Prerequisites:
It is an introduction course. No prerequisites are required. You need to bring your own laptop and to have a wifi connection at the RI.