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This is a new course for the beginners at HPC. Following topics will be addressed:  Introduction to HPC and Computing Clusters  Connecting to the CRG and CNAG clusters  Use of bash and the command line (linux primer)  Using the batch systems to submit jobs including use of job arrays and job dependencies  Efficient use of storage on the cluster  Use of git and terminal editors to improve productivity 

The course will give an overview of important concepts and methods used to analyse “Biomedical data”. The emphasis will be on the understanding of statistical concepts and their interpretation in a research framework. After a general introduction on probability theory and statistical inference, an emphasis will be made on common statistical methods. Particular cases will be used as illustrative examples.

Welcome to the “Essential mathematics for biological research” course organised by Eleonora Tulumello and Jorge Carneiro for the CRG. The course is structured in two phases. In the first phase, we will recapitulate essential elements of algebra, geometry and calculus and will ask students to develop quantitative skills using only “paper & pencil”. In the second phase we will work out more advanced topics with the help of a computational tool. The idea is to overcome the aversive reaction towards maths, formalisms and computation. Researchers that participated in the course are expected to: 1) be able to progress on their own into more advanced mathematical topics necessary for their research ; 2) be able to read and understand equations in an article instead of jumping to the discussion section or dropping the paper altogether; 3) be capable of dialoguing with colleagues who do research in mathematics, statistics, physics or computation and thus engage in interdisciplinary research. The course will run from mid October until the end of November. Students will interact with Jorge during collective (in)formal classes on Tuesday and Friday mornings and during two additional hours ad libitum. In between, students will do practical exercises aiming at building and/or maintaining their “quantitative muscle”.

The course will give an overview of important concepts and methods used to analyse “Biomedical data”. The emphasis will be on the understanding of statistical concepts and their interpretation in a research framework. After a general introduction on probability theory and statistical inference, an emphasis will be made on common statistical methods. Particular cases will be used as illustrative examples.

Modern Biology is becoming an increasingly quantitative discipline that requires a high degree of interdisciplinary interactions among scientists. Biologists usually face the most difficult part of interdisciplinary collaborations since the level of mathematics needed to develop a fruitful discussion is relatively high. The goal of this course is to introduce biologists to the most basic concepts of mathematics that are needed for the study of Calculus and to acquire a basic understanding of the language of mathematics to ease interdisciplinary communication. Teacher: Juanjo Fraire Zamora

Teachers: CRG Bioinformatics core facilityDuration: 8 interactive sessions Fridays 10:00-11:30 - CRG Training CenterStart date: 24th January 2020End Date: 13th March 2020Level: Beginners/ non bioinformaticiansMaximum nº students: 19 Topics covered: DNA, gene, and protein sequences: Protein and gene databases Sequence comparison Genome sequences and annotations Gene and protein function Protein-DNA interactions Gene expression Functional annotation and gens sets

This course will focus on the preparation of next generation sequencing libraries for sequencing on the Illumina platform. The course will include a theoretical part about sequencing technologies and a practical part scheduled in two modules to be chosen: ChIP seq library preparation (NEBNext) and mRNA seq stranded library preparation (Illumina). The course will be taught by experienced instructors from the core facility who use these protocols on a daily basis. The course will consist of a common theoretical part and two separate modules (mRNA seq and ChIP seq) which could be taken independently.