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13 materials found

Authors: erasche  or Helen Brown 

Galaxy Server administration - Ansible

Resources related to configuration and maintenance of Galaxy servers

Questions of the tutorial:

  • Why Ansible?
  • How and when to use Ansible?
  • How to write a role?
  • How to leverage community build roles?

Objectives of the tutorial:

  • Learn Ansible basics
  • Write a simple role
  • Install a...

Resource type: Tutorial

Data Manipulation - Collections: Rule Based Uploader

A collection of microtutorials explaining data manipulation within Galaxy

Questions of the tutorial:

  • How to use the rule based uploader to create complex collections

Objectives of the tutorial:

  • Learn about the Rule Based Uploader

Resource type: Tutorial

Contributing to the Galaxy Training Material - Creating a new tutorial - Slides

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Slides

Development in Galaxy - Galaxy Interactive Environments

Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ...

Questions of the tutorial:

  • What are Galaxy Interactive Environments (GIEs)?
  • How to enable GIEs in Galaxy?
  • How to develop your own...

Resource type: Slides

Galaxy Server administration - Advanced customisation of a Galaxy instance

Resources related to configuration and maintenance of Galaxy servers

Resource type: Slides

SAS Introduction


  1. Data summary

  2. Demo – Data Summary

  3. Demo – Data Summary cont.

  4. Data summary using PROC TABULATE and PROC GPLOT

  5. Statistical analysis

  6. Example analysis

  7. Example analysis cont.1

  8. Example analysis cont.2

  9. Reading and manipulating...

Keywords: SAS, Roslin Institute

Summarising Data

  1. Introduction

  2. Introduction to Data Summary & Types of data

  3. Continuous Data – Measures of Location

  4. Continuous Data – Measures of Spread & Accuracy

  5. Continuous Data with Skewed or Odd Distributions – Measures of Spread

  6. Choosing Appropriate Summary Statistics...

Keywords: Summarising data, Roslin Institute

Basic Statistical Tests

  1. Introduction

  2. Hypothesis Testing

  3. Choosing Between Parametric & Non-Parametric Tests

  4. T-Test for Comparing Two Groups

  5. T-Test – Interpreting Software Output

  6. Paired T-Test

  7. Mann-Whitney U-Test to Compare Two Groups When Data Are Not Normally Distributed


Keywords: Statistical tests, Roslin Institute

Introduction to Experimental Design

  1. Introduction

  2. Achieving Statistical Significance

  3. Achieving Generalisable Results

  4. Avoiding Bias

  5. Questions to Address When Planning

  6. Examples of Experimental Designs

  7. Randomised Block Design

  8. Crossover & Repeated Measures Designs

  9. Pilot & Proof...

Keywords: Experimental design, Roslin Institute

Introduction to Sample Size Calculation

  1. Introduction

  2. Sample Size Calculation – Basic Formula

  3. Example 1

  4. Calculating In Terms of ‘Difference to Detect’ & Power From Sample Size

  5. Example 2

  6. Different Numbers Per Group

  7. Different Variances for Groups

  8. Binary Data

  9. Allowing for...

Keywords: Sample size, Roslin Institute

Introduction to Statistical Modelling

  1. Introduction

  2. One-Way Analysis of Variance (ANOVA) Recap

  3. Two-Way ANOVA - Assessing Two Effects in Same Model

  4. Two-Way ANOVA - Allowing for Structure in The Data

  5. Paired T-Test Using Two-Way ANOVA & ANOVA With More Effects

  6. Regression Recap

  7. General Linear...

Keywords: Statistical modelling, Roslin Institute

Introduction to Mixed Models

  1. Introduction

  2. What Are Mixed Models?

  3. Potential Advantages of Mixed Models

  4. Historical Perspective

  5. Example 1: Biological & Technical Replicates

  6. Example 2: Rabbit Inspiration Time – Sources of Variation

  7. Non-Normal Data

  8. Example 3: Non-normal data


Keywords: Mixed models, Roslin Institute

Introduction to Analysing Repeated Measures Data

  1. Introduction

  2. Potential Analysis Approaches

  3. Mixed Model Analysis

  4. Covariance Pattern Model

  5. Example – Covariance Pattern Model

  6. Significance Testing for Fixed Effects

  7. Model Checking

  8. Random Coefficients (Slopes) Models

  9. Example – Random Coefficients...

Keywords: Data analysis, Repeated measures, Roslin Institute