E-MUSE
Complex microbial Ecosystems MUltiScale modElling:
mechanistic and data driven approaches integration
1st training event
Paris
Bioinformatics training
Training
November 22nd until December 2nd
Preparatory courses & Accounts
Before 22.11.2021
Introduction to UNIX
ORCID account
OSF account
Individual, personnal works
Programs to be installed
Before 22.11.2021
Package SARtools
Anaconda (for jupyter)
Megan6
Notepad++ (or any serious text editor)
VirtualBox
R
Rstudio
Ubuntu
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Introductions to the Bioinformatics Training
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22.11.2021
Introductions to the Bioinformatics Training
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09:30 - 10:45 Installation Session&Troubleshooting
10:45 - 11:00 Coffee Break
11:00 - 11:30 Installation Session&Troubleshooting
11:30 - 13:00 Introduction to Snakemake
13:00 - 14:00 Lunch
14:00 - 15:00 E-MUSE project introduction
15:00 - 15:10 Coffee Break
15:10 - 16:00 Introduction to MSCA-ITN
16:00 - 16:30 ESRs representatives election
ISC-PIF,113 rue Nationale, 75013 Paris
23.11.2021
1st day of Consortium Meetings
10:00 - 12:00 Preparatory courses: Introduction to R and R studio
IJM Université Paris Diderot/CNRS - Bâtiment Buffon, 15 rue Hélène Brion, 75205 Paris CEDEX 13 (salle 141 B)
24.11.2021
2nd day of Consortium Meetings
09:00 - 11:30 Preparatory courses: Introduction to R, R studio and Galaxy
IJM Université Paris Diderot/CNRS - Bâtiment Buffon, 15 rue Hélène Brion, 75205 Paris CEDEX 13 (salle 141 B)
25.11.2021
Visit and sequencing
09:00 - 10:00 Transfer to Thiverval-Grignon
10:00 - 12:00 Analytical Platform, Microbiology and Molecular Biology laboratories visit
12:00 - 13:00 Transfer to ISC-PIF
13:00 - 14:00 Lunch
14:00 - 15:30 Sequencing
15:30 - 15:40 Coffee Break
15:40 - 17:00 Introduction to R
Thiverval-Grignon (morning)
ISC-PIF,113 rue Nationale, 75013 Paris (afternoon)
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26.11.2021
RNAseq Analysis
09:00 - 10:45 RNAseq Analysis
10:45 - 11:00 Coffee Break
11:00 - 13:00 RNA seq Analysis
13:00 - 14:00 Lunch
14:00 - 15:30 RNA seq Analysis
15:30 - 15:40 Coffee Break
15:40 - 17:00 RNA seq Analysis
ISC-PIF,113 rue Nationale, 75013 Paris
29.11.2021
Metagenomics
09:00 - 10:45 Metagenomics
10:45 - 11:00 Coffee Break
11:00 - 13:00 Metagenomics
13:00 - 14:00 Lunch
14:00 - 15:30 Metagenomics
15:30 - 15:40 Coffee Break
15:40 - 17:00 Metagenomics
ISC-PIF,113 rue Nationale, 75013 Paris
30.11.2021
Proteomics
09:00 - 10:45 FAIR Data
10:45 - 11:00 Coffee Break
11:00 - 13:00 FAIR Data
13:00 - 14:00 Lunch
14:00 - 15:30 Proteomics
15:30 - 15:40 Coffee Break
15:40 - 17:00 Proteomics
ISC-PIF,113 rue Nationale, 75013 Paris
01.12.2021
Metabolomics
09:00 - 10:45 Metabolomics
10:45 - 11:00 Coffee Break
10:45 - 13:00 Metabolomics
13:00 - 14:00 Lunch
14:00 - 15:30 Metabolomics
15:30 - 15:40 Coffee Break
15:40 - 17:00 Metabolomics
ISC-PIF,113 rue Nationale, 75013 Paris
02.12.2021
PCA Clustering
09:00 - 10:45 PCA clustering
10:45 - 11:00 Coffee Break
10:45 - 13:00 PCA clustering
13:00 - 14:00 Lunch
14:00 - 15:30 Further clustering methods (e.g. PLS:DA, PLS correlation, PLS regression...)
15:30 - 15:40 Coffee Break
15:40 - 17:00 Further clustering methods (e.g. PLS:DA, PLS correlation, PLS regression...)
ISC-PIF,113 rue Nationale, 75013 Paris