Bioinformatics course timetable
May 2015
Thu 21 |
This course provides an introduction to the R programming language and software environment for statistical computing and graphics. A variety of examples with a biological theme will be presented. Further information is available here. The Course Web Site providing links to the course materials is here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register Interest by linking here. |
Fri 22 |
This course provides an introduction to the R programming language and software environment for statistical computing and graphics. A variety of examples with a biological theme will be presented. Further information is available here. The Course Web Site providing links to the course materials is here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register Interest by linking here. |
Wed 27 |
This course provides a practical guide to producing figures for use in reports and publications. It is a wide ranging course which looks at how to design figures to clearly and fairly represent your data, the practical aspects of graph creation, the allowable manipulation of bitmap images and compositing and editing of final figures. The course will use a number of different open source software packages and is illustrated with a number of example figures adapted from common analysis tools. Morning Timetable
Afternoon Timetable
Further information and access to the course materials is available. Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here. |
Thu 28 |
Genome Annotation with Artemis
Finished
This one day workshop aims to give an introduction to Artemis and ACT (Artemis Comparison Tool). Both tools enable the visualization, analysis and comparison of genome data. They are freely available for all operating systems and can be downloaded here. This is a hands-on course with short talks introducing the tools. The course is taught by members of the Pathogen and Parasite Genomic Teams from the Wellcome Trust Sanger Institute. Further information is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Fri 29 |
Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
June 2015
Mon 1 |
This course provides an introduction to the tools available through the Bioconductor project for manipulating and analysing high-throughput sequencing (HTS) data. We will present workflows for the analysis of ChIP-Seq and RNA-seq data starting from aligned reads in bam format. We will also describe the various resources available through Bioconductor to annotate and visualize HTS data, which can be applied to any type of sequencing experiment. During this course you will learn about:
The course timetable is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Tue 2 |
This course provides an introduction to the tools available through the Bioconductor project for manipulating and analysing high-throughput sequencing (HTS) data. We will present workflows for the analysis of ChIP-Seq and RNA-seq data starting from aligned reads in bam format. We will also describe the various resources available through Bioconductor to annotate and visualize HTS data, which can be applied to any type of sequencing experiment. During this course you will learn about:
The course timetable is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Wed 3 |
This course provides an introduction to the tools available through the Bioconductor project for manipulating and analysing high-throughput sequencing (HTS) data. We will present workflows for the analysis of ChIP-Seq and RNA-seq data starting from aligned reads in bam format. We will also describe the various resources available through Bioconductor to annotate and visualize HTS data, which can be applied to any type of sequencing experiment. During this course you will learn about:
The course timetable is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Fri 5 |
This event provides an introduction to the EMBL-European Bioinformatics Institute (EMBL-EBI) resources. During the workshop we will introduce ways to navigate the EMBL-EBI website, search EMBL-EBI database resources and explore our bioinformatics tools, including sequence searching and alignment tools. It will also highlight additional resources such as Train Online. Also note: If you wish to learn any specific information about particular EMBL-EBI resources, then we will be running a series of separate short introductions later in the year, which will be bookable separately (see Related Courses below). Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Mon 8 |
This course provides a practical introduction to the writing of Python programs for the complete novice. Participants are lead through the core aspects of Python illustrated by a series of example programs. Upon completion of the course, attentive participants will be able to write simple Python programs from scratch and to customize more complex code to fit their needs. Further information is available here. The Course Web Site providing links to the course materials is here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Tue 9 |
This course provides a practical introduction to the writing of Python programs for the complete novice. Participants are lead through the core aspects of Python illustrated by a series of example programs. Upon completion of the course, attentive participants will be able to write simple Python programs from scratch and to customize more complex code to fit their needs. Further information is available here. The Course Web Site providing links to the course materials is here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Wed 10 |
This session provides an introduction to Network Analysis using Cytoscape and PSICQUIC [from the European Bioinformatics Institute (EBI)]. It is aimed at biologists and computer scientists wanting to learn the basics of network analysis. Further information for this session is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
This session provides an introduction to Network Analysis using Cytoscape and PSICQUIC [from the European Bioinformatics Institute (EBI)]. It is aimed at biologists and computer scientists wanting to learn the basics of network analysis. Further information for this session is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
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Thu 11 |
Galaxy (http://galaxyproject.org/) is an open, web-based platform for data intensive life science research that enables non-bioinformaticians to create, run, tune, and share bioinformatic analyses. The goal of this course is to demonstrate how to use Galaxy to explore RNA-seq data, for expression profiling, and ChIP-seq data, to assess genomic DNA binding sites. You will learn how to perform analysis in Galaxy, and then how to share, repeat, and reproduce your analyses. The timetable for this event can be found here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book by linking here. |
Fri 12 |
Galaxy (http://galaxyproject.org/) is an open, web-based platform for data intensive life science research that enables non-bioinformaticians to create, run, tune, and share bioinformatic analyses. The goal of this course is to demonstrate how to use Galaxy to explore RNA-seq data, for expression profiling, and ChIP-seq data, to assess genomic DNA binding sites. You will learn how to perform analysis in Galaxy, and then how to share, repeat, and reproduce your analyses. The timetable for this event can be found here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book by linking here. |
Mon 15 |
This course is aimed at researchers who want to learn core skills and best practices for scientific computing. It will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems. The course covers the core skills needed to be productive in a small research team:
Further information is available here. Applicants for this course are requested to complete a pre-course survey. This will be used to tailor the course content to the audience research interests and background. This event is organized in collaboration with Software Carpentry. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Tue 16 |
This course is aimed at researchers who want to learn core skills and best practices for scientific computing. It will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems. The course covers the core skills needed to be productive in a small research team:
Further information is available here. Applicants for this course are requested to complete a pre-course survey. This will be used to tailor the course content to the audience research interests and background. This event is organized in collaboration with Software Carpentry. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Wed 17 |
This course covers state-of-the-art tools and methods for NGS RNA-seq and exome variant data analysis, which are of major relevance in today's genomic and gene expression studies. It is oriented to experimental researchers, post-doctoral and PhD students who want to learn about the state-of-the-art of genomic variant and transcriptomics data analysis methodologies and carry out their own analysis. Further information is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Thu 18 |
This course covers state-of-the-art tools and methods for NGS RNA-seq and exome variant data analysis, which are of major relevance in today's genomic and gene expression studies. It is oriented to experimental researchers, post-doctoral and PhD students who want to learn about the state-of-the-art of genomic variant and transcriptomics data analysis methodologies and carry out their own analysis. Further information is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Fri 19 |
This course covers state-of-the-art tools and methods for NGS RNA-seq and exome variant data analysis, which are of major relevance in today's genomic and gene expression studies. It is oriented to experimental researchers, post-doctoral and PhD students who want to learn about the state-of-the-art of genomic variant and transcriptomics data analysis methodologies and carry out their own analysis. Further information is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here. |
Mon 22 |
Using the Ensembl Genome Browser
Finished
The Ensembl Project provides a comprehensive and integrated source of annotation of, mainly vertebrate, genome sequences. This one-day workshop offers a comprehensive practical introduction to the use of the Ensembl genome browser as well as essential background information. This course will focus on the vertebrate genomes in Ensembl, however much of what will be covered is also applicable to the non-vertebrates (plants, bacteria, fungi, metazoa and protists) in Ensembl Genomes. There may be some tools and topics that do not apply to non-vertebrates; if you have any questions about this, please email the Ensembl Outreach Project Leader, Emily Perry. Applicants for this course are requested to complete a pre-course survey. This will be used to tailor the course content to the audience research interests and background. Further information is available here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to Book or register Interest by linking here. |
CRUK: Basic Unix
Finished
The Unix shell has existed since the early days of computers, and yet is still the preferred way to run many popular Bioinformatics tools. This course aims to take the novice and turn them into a beginning Linux user. We will describe the Linux environment so they can start to utilize command-line tools and feel comfortable using a text-based way of interacting with a computer. This event is part of a series of training courses organized in collaboration with Dr. Mark Dunning at CRUK Cambridge Institute. |
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Tue 23 |
This course provides a refresher on the foundations of statistical analysis. Practicals are conducted using the R commander package, which provides an accessible interface to the R statistical language. This event is part of a series of training courses organized in collaboration with Dr. Mark Dunning at CRUK Cambridge Institute. |
This course provides an introduction to the R programming language and software environment for statistical computing and graphics. A variety of examples with a biological theme will be presented. Further information is available here. The course website providing links to the course materials is here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register Interest by linking here. |
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Wed 24 |
This course provides an introduction to the R programming language and software environment for statistical computing and graphics. A variety of examples with a biological theme will be presented. Further information is available here. The course website providing links to the course materials is here. Please note that if you are not eligible for a University of Cambridge Raven account you will need to book or register Interest by linking here. |