CAN Training courses

We organize each year during the fall semester (starting usually in October) various training courses (c.f. below), in particular on basics programming with R, Unix, Python and ImageJ. We also organize shorter one-time training sessions on specific subjects (c.f. below) throughout the year. Check your e-mails for future announcement.

Ask your local CAN representative for more information.

Note

CAN training courses are free (thanks to volunteering trainers) and open for all (permanent and non-permanent) members of the following labs (SFR BioSciences partners): CIRI, IGFL, LBMC, RDP, MMSB, LBTI, IVPC, IBCP.

Warning

The 2025 training courses are starting soon. See the dedicated page to register.

You can subscribe to the CAN training course calendar to add it to your calendar application.

Training course list

Long courses

  • Unix and command line (~10 × 1h30)
    • understand the general functioning of a computer
    • interact with a UNIX-type system through a command line interface
    • use remote resources via command line
    • install and use command line programs
    • manipulate textual data in an automated way
    • have basic knowledge of administration on this type of system
    • have basic knowledge of system virtualization
  • R basis (~10 × 1h30)
    • learn the basics of R language
    • learn to use the Rstudio IDE
    • import data tables
    • filter and sort data tables
    • reorganize data tables
    • create figures
    • manipulate REGular EXpressions (regex)
  • Python for beginners (12 × 1h30)
    • learn the basics of Python language
    • learn the main Python containers
    • learn to use the Spyder IDE
    • perform efficient scientific computation using NumPy
    • manipulate and transform tabular data with Pandas
    • visualize data with Matplotlib and Seaborn
  • bulk RNA-seq (10 × 3h30)
    • Raw Data Processing
      • Quality control of raw sequencing reads
      • Cleaning and filtering low-quality reads
      • Alignment/mapping of reads to the reference transcriptome
      • Generation of count tables per gene or transcript
    • Statistical Analysis
      • Differential expression analysis
      • Exploration and visualization of statistical results
      • Functional enrichment analysis
  • ImageJ (6 × 2h)
  • Introduction to Artificial Intelligence/Deep Learning (AI/DL) in Python (~14 × 1h30)

Short courses

  • git basis (1 × 3h)
    • learn the basics of git and how it works
  • nextflow (2 × 3h)
    • learn the basics of nextflow
    • know how to use the nf-core project
  • single-cell analysis (2 × 3h)
    • all steps of scRNA-seq data analysis in R
    • mastery of Seurat

Training videos

Other online Materials

Warning

We are currently adding new online courses. Please contact us if you would like to add a new course.

  1. In Lyon, training courses are provided by the FR BioEEnvis’ PRABI-AMSB platform in close collaboration with the LBBE’s IT division. These training courses are primarily intended for members of the FR BioEEnViS, but do not hesitate to apply in case places become available.
  2. Below a list of training courses in France and abroad: