COMETH training course : objectives

  15-16 Feb.2021, ONLINE

This 2-day online course aims to train clinicians to the use of cutting edge computational methods to quantify tumor heterogeneity through a dedicated user-friendly web interface.  

Registration deadline extension: 10 January 2021


Digital platforms

Zoom plenary sessions

For all participants:

Discord discussion platform

For all participants:

  • Create an account on discord
  • Download discord application (highly recommanded to ease the exchanges between participants)
  • Join the COMETH training forum


For computational participants:

COMETH web application

For clinician participants:

COMETH Docker image deconExplorer

For those who want to run the deconvolution and interpretation app locally, we provide a docker image allowing to run all steps of the analysis locally, through your web browser. We provide the instructions for uses running a macOS or linux operating system!

  1. download and install the docker Dektop software for your OS
  2. open a terminal and type the following commands:
cd ~
docker pull ashwinikrsharma/mrna_meth_decon:latest
git clone
docker run --rm -it -p 3838:3838 -v ~/ShinyCompExplore:/srv/shiny-server/ ashwinikrsharma/mrna_meth_decon
  1. open a web browser, and type localhost:3838 in the address bar

Good to go!

COMETH shiny application

Material to download

Practical work will differ according to your affectation (medical or bioinformatic group). Please check your affectation and download the corresponding material here.

For medical group


We have prepared toy expression datasets from the TCGA public cancer database (including clinical annotation tables).

!!Format!! .cvs with separator = “;” and decimal = “.” Samples in column, genes in row (use Gene Symbol as gene ID). If you want to use your own dataset during the course, please use the same csv format (separator = “;” and decimal = “.”).

Omic type : transcriptome

Normalized counts (linear scale)

FPKM (linear scale)

For bioinformatic group

The following R packages migth be of interest

Data challenge general information

Presentation supports

Course format and program

2-day online sessions with general lectures and practical training.

General lectures will cover:

  • Introduction to cancer heterogeneity

  • Introduction to computational methods

  • Interpretation and visualization of the results

  • Detailed program DAY1

  • Detailed program DAY2

Target Group

Limited to 30 participants.


Registration is free of charge but mandatory.

Deadline: 10 January 2021


Yuna Blum
Research scientist,
Ligue Contre le Cancer Paris, France
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Jérôme Cros
APHP, Paris, France
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Carl Herrmann
Medical Faculty Heidelberg, Germany
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Slim Karkar
Research scientist,
Uni. Grenoble Alpes, France
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Magali Richard
Research scientist,
Uni. Grenoble Alpes, France
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Ashwini Sharma
Research scientist,
Medical Faculty Heidelberg, Germany
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Technical support

Clémentine Decamps, Phd Student, Uni. Grenoble Alpes, France
Yasmina Kermezli, Postdoctoral fellow, Uni. Grenoble Alpes, France