Overview
The Linux operating system underlies the HPC cluster at the NBI, and other clusters throughout the world. Unlike Windows and OS X, we usually interact with these systems through the command line. The course will teach the basics of Linux use.
Learning...
Keywords: John Innes Centre, JIC
Overview
Python is a flexible programming language that is becoming increasingly popular for scientific computing. The course is is split into 12 modules and runs over two half days. At the end of each module there a number of exercises to help solidify the learning. By the end of...
Scientific topics: Software engineering
Keywords: Python for Biologists, John Innes Centre, JIC
Overview
R is a programming language and associated environment developed for statistical computing and data analysis. It provides many powerful tools for statistics, data visualisation and bioinformatics.
Learning outcomes
- What R is suitable for.
- How to use R...
Scientific topics: Software engineering, Statistics and probability
Keywords: John Innes Centre, JIC
Overview
Perl is a programming language for getting your job done. It is designed to make the easy jobs easy, without making the hard jobs impossible. Perl is also well known for BioPerl, a collection of modules which greatly simplify complicated bioinformatics tasks.
Learning...
Scientific topics: Software engineering
Keywords: perl, John Innes Centre, JIC
Overview
We make extensive use of both light and electron microscopy in our research. The aquisition of images by a microscope is only the beginning of the process of extracting meaningful and useful information from those images. As well as extracting information, it's...
Scientific topics: Imaging, Bioimaging
Keywords: John Innes Centre, JIC
Overview
Galaxy is an open, web-based platform for data intensive biomedical research. It offers an accessible, reproducible and transparent computational workbench for the biologist. This workbench is very useful in automating repeated analysis steps in the form of workflows. The...
Scientific topics: Workflows, High-throughput sequencing, Nucleic acid sequence analysis, Bioinformatics
Keywords: John Innes Centre, JIC
Filename Expansion from https://github.com/swcarpentry/bc/tree/gh-pages/intermediate/shell/05-expansion.md.
Keywords: Shell
Keywords: Shell
Instructor's Guide from https://github.com/swcarpentry/bc/tree/gh-pages/intermediate/shell/guide.md.
Keywords: Shell
Keywords: Shell
Creating Things from https://github.com/swcarpentry/bc/tree/gh-pages/novice/shell/02-create.md.
Keywords: Shell
Shell Scripts from https://github.com/swcarpentry/bc/tree/gh-pages/novice/shell/05-script.md.
Keywords: Shell
Pipes and Filters from https://github.com/swcarpentry/bc/tree/gh-pages/novice/shell/03-pipefilter.md.
Keywords: Shell
Introducing the Shell from https://github.com/swcarpentry/bc/tree/gh-pages/novice/shell/00-intro.md.
Keywords: Shell
Finding Things from https://github.com/swcarpentry/bc/tree/gh-pages/novice/shell/06-find.md.
Keywords: Shell
Files and Directories from https://github.com/swcarpentry/bc/tree/gh-pages/novice/shell/01-filedir.md.
Keywords: Shell
Keywords: Shell
Working Remotely from https://github.com/swcarpentry/bc/tree/gh-pages/intermediate/shell/02-ssh.md.
Keywords: Shell