From Bioinformatics Core Wiki
Revision as of 09:48, 11 June 2020 by WikiSysop
25 October 2022 - Genomics Format
- PhD course about genomics format (2022) (https://biocorecrg.github.io/PhD_course_genomics_format_2022/)
1 July 2022 - Nexflow for reproducible research
Two full-day internal hands-on course on how to fetch, run and build Nextflow pipelines using Singularity containers. (https://biocorecrg.github.io/CRG_Nextflow_June_2022/about.html)
29 June 2022 - CRG internal course "Scientific Containers: Docker and Singularity"
One full-day hands-on course introducing how to work with Linux containers. (https://biocorecrg.github.io/CRG_Containers_June_2022/about.html)
7 June 2022 - Courses @ CRG: Reproducible research and data analysis using Containers & Nextflow 2022
This 6 half-day hands-on online course was dedicated to introduction to Docker and Singularity containers and how to use existing and develop new Nexftlow pipelines, including nf-core standard pipelines. . (https://biocorecrg.github.io/CoursesCRG_Containers_Nextflow_May_2022/)
7 February 2022 - PHINDaccess reproducible research and data analysis using Linux Containers and Nextflow pipelines
Scientific containers and Nextflow PHINDaccess course (Virtual - Pasteur Tunis) (https://github.com/biocorecrg/PHIND_course_nextflow_Feb_2022)
1 December 2021 - Nextflow workshop at the ELIXIR Bioinformatics workflow management event
A short online practicum on how to use Nextflow at the ELIXIR Bioinformatics workflow management workshop. More than 200 people attended via Zoom and Twitch. (https://nextflow-io.github.io/elixir-workshop-21/docs/)
15 November 2021 - SIB course "Reproducible research and data analysis using Nextflow pipelines"
The 4 half-day online course delivered for the SIB Swiss Bioinformatics Institute. 34 people from 10 countries attended! (https://github.com/biocorecrg/SIB_course_nextflow_Nov_2021)
19 October 2021 - CRG PhD course "Linux commands and Genomics data formats for biologists"
Short hands-on practicum for absolute beginners. (https://biocorecrg.github.io/PhD_course_genomics_format_2021)
18 October 2021 - CRG PhD course "Introduction to Linux containers"
Short hands-on practicum on how to start working using Linux containers. (https://biocorecrg.github.io/PhD_course_containers_2021/)
3 May 2021 - Courses@CRG "Reproducible research and data analysis with Linux containers and Nextflow pipelines"
This international 4 full day hands-on online course was dedicated to introduction to Docker and Singularity containers and development of Nexftlow pipelines. 31 people from 19 organizations (both industry and academia) and 7 countries attended the course and evaluated it at the general scores 3,8 out of 4. (https://biocorecrg.github.io/CoursesCRG_Containers_Nextflow_May_2021/)
19 April 2021 - CRG course "Intermediate R: Introduction to data wrangling using tidyverse"
This 8-hour online training course introducing some of the tidyverse packages and functions for data wrangling and manipulation: dplyr, tidyr, stringr and readr. (https://biocorecrg.github.io/CRG_R_tidyverse_2021/)
15 March 2021 - CRG course "Introduction to R"
This 3 module of 6 hours instructions online course introduces major concepts of R language and programming. (https://biocorecrg.github.io/CRG_RIntroduction_2021/)
19 February 2021 - CRG course "Bioinformatics for Biologists"
The CRG internal course of 8 1,5hr sessions introducing major bioinformatics concepts and web resources on the topics of protein and DNA sequences, biological ontologies, sequence alignment, gene and protein function, genome sequences and annotations, protein-DNA interactions, gene expression and functional annotation of gene sets. (https://biocorecrg.github.io/CRG_Bioinformatics_for_Biologists_2021/)
9 November 2020 - CRG PhD course "Linux for biologists & Genomics data formats".
26 October 2020 - ELIXIR course "Containers and Workflow Pipelines for reproducible and automated data analysis" (26-27 October, 2020)
Two full day hands-on course (run online). The course has been organized and supported by the VIB Bioinformatics core. 25 people attended the course. The course materials are available on GitHub. (https://biocorecrg.github.io/ELIXIR_containers_nextflow/)
February 2020 - CRG course "Introduction to R" 2020
CRG Internal course for Introduction to R (https://biocorecrg.github.io/CRG_RIntroduction/)
February 2020 - RNA-seq data analysis
Course given at the Institut Pasteur Tunis as part of the EU PHINDaccess project. (https://biocorecrg.github.io/PHINDaccess_RNAseq_2020/)
January 2020 - Bioinformatics for biologists 2020
8 session modules CRG Internal Course as Introduction to Bioinformatics for biologists. (https://biocorecrg.github.io/CRG_Bioinformatics_for_Biologists/)
October 2019 - Linux for biologists. Internal PhD course
Course about ChiP-SEQ, different biological data formats and Linux Bioinformatics tools.
May 2019 - Introduction to RNA-seq data analysis
The 14-hour hands on course on how to analyze RNA-seq data: data formats, quality control, mapping, differential expression, functional analysis. A small RNA-seq project was handed to the trainees who had one week to process it. It was then discussed during a final 4-hour session. (https://biocorecrg.github.io/RNAseq_course_2019/)
March 2019 - Advanced linux course for biologists and genomics data formats
Two three-hour sessions to understand some of the main genomics data formats (fasta, fastq, gtf, bed...) and to learn how to parse them. (https://biocorecrg.github.io/advanced_linux_2019/)
February 2019 - CRG course: Introduction to R and exploratory data analysis - February/March 2019
The eight three and a half-hour hands-on sessions of how to use R-Studio, learn and practice the basics in R, perform plotting and exploratory data analysis. (https://biocorecrg.github.io/CRG_RIntroduction/)
December 2018 - Introduction to containers - December 2018 and January 2019
The two four-hour hands-on sessions of how to create and use containers (Docker and Singularity). (https://github.com/biocorecrg/containers-course)
March 2018 - CRG course: Introduction to R - March/April 2018
The four four-hour hands-on sessions of how to use R-Studio, learn and practice the basics in R, and perform basic plotting and data analysis. (https://biocore.crg.eu/wiki/CRG_Introduction_to_R_2018)
October 2017 - CRG PhD Course 2017-2018 "Introduction to Statistics in R"
The three two-hour hands-on sessions of how to use R-Studio and perform basic plotting and data analysis. (https://biocore.crg.eu/wiki/CRG_PhD_Course_2017_Introduction_to_Statistics_in_R)
July 2017 - CRG course "Introduction to R" 2017
12h very slow paced hands-on to learn how to use R. (https://biocore.crg.eu/wiki/CRG_Introduction_to_R_July2017)
May 2017 - CRG course "Introduction to Statistics and R programming", May - June, 2017
In this course, the introduction to R is offered in 4 slow-paced practicums for absolute beginners, followed by 3 fast-paced practicums of statistical modules. The statistics material is offered in 3 consecutive modules, each containing a morning lecture and an afternoon practicum in a computer class. (https://biocore.crg.eu/wiki/CRG_Introduction_to_Statistics_and_R_2017)
October 2016 - CRG PhD/Master course 2016-2017 "Introduction to Statistics in R"
The hands-on sessions of how to use R-Studio and perform basic plotting and data analysis. (https://biocore.crg.eu/wiki/CRG_PhD_&_Masters_Course_2016_Introduction_to_Statistics_in_R)
May 2016 - BIST Course "Introduction to Statistics in R"
This introductory course to Statistics and Probability theory was modeled after the university-level course Statistics 101. (https://biocore.crg.eu/wiki/BIST_Introduction_to_Statistics_2016)
- Linux & CRG Cluster Usage. The courses on basic Linux and how to use the CRG cluster are regularly run by the CRG SIT Unit and can be found at the SIT website (accessible only from CRG network).