A list of training material which can be viewed/downloaded

The summer school on Epigenomics will be organised between 23 and 27 July 2018. It will focus on Epigenomics and will cover aspects of transcription factor binding, chromatin modifications, chromosome conformation, DNA methylation and nucleosome positioning, and the integration of this data type with other HTS data, such as gene expression and variation. You can download the protocols that shall be followed throughout the summer school.

The summer school on Model Systems was organised between 18 and 22 September 2017. Two days of the summer school included presentations on iPSCs and model systems given by researchers from UCAM, KU Leuven and UM. Access the abstracts  . The remaining three days of the summer school was lab-based and participants performed CRISPR which is a technology used for gene editing. You can download the protocols   followed and the results   obtained during the summer school.

The 2nd TrainMALTA Networking Event was organised on 1 and 2 June 2017 at the University of Cambridge UK. On day 1, participants gave presentations   on their past and current research. On day 2, genes of interest were analysed during a gene-centred workshop using different data sets (genomic, transcriptomic, epigenomic etc.) generated by research projects at UCAM. Download the course material for day 2  .

Course Material covered during EMBL-EBI Roadshow which occurred on 2 and 3 February 2017. Course material covers the following modules:

1. Ensembl Genomes browsing
2. Genetic Variation Databases (European Variation Archive)
3. Standards and Ontologies (GO, OLS)
4. Interactions & Pathways (Reactome, IntAct)

NB: Introductory training videos on Ensembl browser can be found in the following links:

Ensembl online training 1  
Ensembl online training 2  
High Throughput Sequence Bioinformatics Summer School that took place from 12 to 16 September 2016.
Practical exercises and resources - download the data files to follw the practical exercises. 
Course Material   covered during [R]efresh - Introductory Course to R. The material covers:

1. An introduction to R - installation of R and introducing basic features
2. Vectors and Matrices in R
3. Introduction to functions and basic programming principles in R
4. Introduction to Data Frames and functions used to load/save data from/to files
5. Manipulating Data Frames in R - Using dplyr to manipulate data frames
6. Basic Visualisation - Using the Base Package in R to visualise data
7. Advanced Visualisations using ggplot2 and R

Note that R and RStudio software are required to follow this course material.
Download R.
Download RStudio.

Course Material covered during Data Carpentry Workshop. Course material provides instructions on:

1. How to use spreadsheet programs (such as Excel) more effectively, and the limitations of such programs
2. Getting data out of spreadsheets and into more powerful tools (such as RStudio)
3. Data management and manipulation
4. Data visualisation
5. Workflows and automating repetitive tasks, in particular using the command line shell
6. The use of OpenRefine
7. The use of SQLite