View Group ContentGroup: EOS - Keystone Skills in Bioinformatics 13th -14th Feb 2014
This is a group for all participants of the EOS Keystone Skills in Bioinformatics.
Days 9 -10. Workflows, Taverna and the BioVeL Project.
Timetable:
Thursday, 13th February, 2014
09:30 - 10:00 Introductions. Outline of learning objectives for days 9 & 10.
10:00 - 10:30 An introduction to myExperiment.
- Setting up a myExperiment account
10:30 - 11:15 Demonstration of 2 workflows in the BioVeL portal.
- Ecological Niche Modelling
- Fetch GBIF Occurrence Data
11:15 - 11:30 Tea / Coffee break
11.30 - 11:45 ? Setup. F. Quevedo.
11:45 -12:30 An Introduction to Designing and Executing Workflows with Taverna - Part 1
- Building a simple workflow
12:30 - 13:30 Lunch
13:30 - 15:00 An Introduction to Designing and Executing Workflows with Taverna - Part 2
- Extending the simple workflow.
- Inputting data directly, via local files, via URL's
- Importing and exporting data to / from workflows via spreadsheets
Introductory bioinformatic exercises
15:00 - 15:30 Exploring the Taverna workflow engine.
15:30 - 15:45 Tea / Coffee break
15:45 - 16:30 Working with the BioVeL portal. In this exercise we will upload the workflow we created in the previous exercise and run it on the BioVeL Portal.
Friday, 6th December
09:30 - 10:30 Using Rshell in Taverna Workbench tutorial
10:30 - 11:00 Embedding an R Script in a workflow exercise
11:00 - 11:30 Coffee break and Demonstration. Embedding workflows in your website (Taverna Player)
11:30 - 12:30 Embedding an R Script in a workflow exercise continued / Bring Your Own R Script (BYOR)
12:30 - 13:30 Lunch
13:30 - 15:00
15:00 - 15:30 Wrap-up and feedback
Created at: Wednesday 05 February 2014 15:20:10 (UTC)
News
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Norman Morrison shared Embedding an R Script in a Workflow ExerciseThis pack has all the files for the problem based learning exercise of embedding an R Script in a workflowThursday 13 February 2014 17:47:42 (UTC)
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Norman Morrison shared Taverna Tool ServiceTaverna Tool service tutorial packThursday 13 February 2014 17:41:07 (UTC)
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Tim Booth shared Rserve on Bio-LinuxThe recommended way to run Rserve on Bio-Linux is to install the "r-cran-rserve" package - ie: $ sudo apt-get install r-cran-rserve (Note - this wasn't working on the morning of the 13th but has now been fixed in version 1.7-3-0biolinux2) If you install the library by using install.packages("Rserve") …Thursday 13 February 2014 14:56:15 (UTC)
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Selina Brace, Cecilia Rad, Lauren Laing, Anthony Redmond, Roselyn Ware, Amanda Hopes, Fiona Lappin, Catharine Bruce, Andy J, LINDA AKPOJIVI, T Crell, Louise Reynolds, Victora Sleight, Kyle Fletcher, Hyun Soon Gweon, Bas Verbruggen, Caitlin Potter, and Tim Booth joined the EOS - Keystone Skills in Bioinformatics 13th -14th Feb 2014 group -
Norman Morrison shared An introduction to designing and executing workflows with Taverna Bioinformatics exercisesThis tutorial uses Bioinformatics exercises as an introduction to designing and executing workflows with Taverna.Thursday 13 February 2014 08:46:17 (UTC)
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Norman Morrison shared An introduction to Taverna componentsTuesday 11 February 2014 16:15:52 (UTC)
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Norman Morrison shared Working with the BioVeL PortalIn this exercise we will upload and run a simple workflow that we created in the previous exercises on the BioVeL portal.Tuesday 11 February 2014 16:12:36 (UTC)
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Norman Morrison shared Setup instructions for BioLinux VMVersion2Tuesday 11 February 2014 16:01:51 (UTC)
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Norman Morrison shared Embedding an R Script in a Workflow ExerciseThis exercise is designed as a problem based learning task to understand how to embed R Scripts in workflows in Taverna.Tuesday 11 February 2014 15:42:26 (UTC)
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Norman Morrison shared R Exercise Worm Gen Matrix DataData provided by Daniel Pass, Cardiff UniversityTuesday 11 February 2014 15:28:24 (UTC)
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