Study programme 2018-2019Français
Science des données V : recherche reproductible
Programme component of Master's Degree in Biochemistry and Molecular and Cell Biology Research Focus à la Faculty of Science
CodeTypeHead of UE Department’s
contact details
Teacher(s)
US-M2-BBMCFA-037-MOptional UEGROSJEAN PhilippeS807 - Ecologie numérique des milieux aquatiques
  • GROSJEAN Philippe

Language
of instruction
Language
of assessment
HT(*) HTPE(*) HTPS(*) HR(*) HD(*) CreditsWeighting Term
  • Français
Français101000022.001st term

AA CodeTeaching Activity (AA) HT(*) HTPE(*) HTPS(*) HR(*) HD(*) Term Weighting
S-BIOG-077Data Sciences V : reproducible research1010000Q1100.00%
Programme component

Objectives of Programme's Learning Outcomes

  • In the field of biological sciences and particularly in the field of the biochemistry, molecular and cell biology, possess highly specialised and integrated knowledge and a wide range of skills adding to those covered in the Bachelor's programme in biological sciences.
  • Master communication techniques.
    • Communicate, both orally and in writing, their findings, original proposals, knowledge and underlying principles, in a clear, structured and justified manner.
  • Develop and integrate a high degree of autonomy.
    • Pursue further training and develop new skills independently.
    • Develop and integrate a high degree of autonomy to evolve in new contexts.
  • Apply scientific methodology.
    • Demonstrate thoroughness, independence, creativity, intellectual honesty, and ethical values.
  • Skill 2: Have acquired professional skills in relation to the objective defining the degree.
    • Learn about scientific research and the world of research.
  • In the field of biological sciences and particularly in the field of the biochemistry, molecular and cell biology, possess highly specialised and integrated knowledge and a wide range of skills adding to those covered in the Bachelor's programme in biological sciences.
  • Apply scientific methodology.
    • Demonstrate thoroughness, independence, creativity, intellectual honesty, and ethical values.
  • Conduct extensive research and development projects related to biological sciences, in the biology of organisms and ecology.
    • Apply, mobilise, articulate and promote the knowledge and skills acquired in order to help lead and complete a project.
    • Show initiative and be able to work independently and in teams.
  • Master communication techniques.
    • Communicate, both orally and in writing, their findings, original proposals, knowledge and underlying principles, in a clear, structured and justified manner.
  • Develop and integrate a high degree of autonomy.
    • Pursue further training and develop new skills independently.
    • Develop and integrate a high degree of autonomy to evolve in new contexts.
  • Apply scientific methodology.
    • Critically reflect on the impact of their discipline in general, and on the contribution to projects.
    • Demonstrate thoroughness, independence, creativity, intellectual honesty, and ethical values.

Learning Outcomes of UE

To specialize students in biology in biological data science through their initiation to various complementary concepts to previous courses. This course supplements data science concepts taught until now with various more advanced topics: floating-point calculation precision, best coding of data in relation with the current problem, how to realize perfectly reproducible analyses, reproducible pseudo-random generators, pre-sorting of the data with SQL commands. This course is partly modular in function of specific needs of students.

Content of UE

Data management; databases; SQL queries; S language (software R) with RStudio; floating-point calculation; pseudo-random numbers generation; reproducible analysis; unit tests; data formats; optimization of calculation speed; optimization of RAM used; vectorized algorithms, ...

Prior Experience

General knowledge in data science, including project management, data importation and transformation, visualization of data through graphs and bases of writing reproducible reports. Advanced biostatistics in main areas used in biological data analyses.

Type of Assessment for UE in Q1

  • Oral examination

Q1 UE Assessment Comments

Evaluation according to questions and answers durting an oral examination.

Type of Assessment for UE in Q3

  • Oral examination

Q3 UE Assessment Comments

Evaluation according to questions and answers durting an oral examination.

Type of Resit Assessment for UE in Q1 (BAB1)

  • Oral examination
  • N/A

Q1 UE Resit Assessment Comments (BAB1)

Not appliable.

Type of Teaching Activity/Activities

AAType of Teaching Activity/Activities
S-BIOG-077
  • Cours magistraux
  • Conférences
  • Ateliers et projets encadrés au sein de l'établissement
  • Préparations, travaux, recherches d'information

Mode of delivery

AAMode of delivery
S-BIOG-077
  • Face to face
  • Mixed

Required Reading

AA
S-BIOG-077

Required Learning Resources/Tools

AARequired Learning Resources/Tools
S-BIOG-077Not applicable

Recommended Reading

AA
S-BIOG-077

Recommended Learning Resources/Tools

AARecommended Learning Resources/Tools
S-BIOG-077Not applicable.

Other Recommended Reading

AAOther Recommended Reading
S-BIOG-077Barnier, J., 2018. Introduction à R et au tidyverse (https://juba.github.io/tidyverse/index.html). Ismay, Ch. & Kim A.Y, 2018. Moderndive: An introduction to statistical and data science via R (http://moderndive.com). Wickham, H. & Grolemund, G, 2017. R for data science (http://r4ds.had.co.nz). Chambers, J.M., 2008. Software for data analysis. Programming with R. Springer, New York, 498pp. Dagnelie, P., 2007. Chambers, J.M., 1998. Programming with data. A guide to the S language. Springer, New York, 469pp. Fortner, B., 1995. The data handbook. A guide to understanding the organization and visualization of technical data. Springer, New York, 350pp.

Grade Deferrals of AAs from one year to the next

AAGrade Deferrals of AAs from one year to the next
S-BIOG-077Authorized
(*) HT : Hours of theory - HTPE : Hours of in-class exercices - HTPS : hours of practical work - HD : HMiscellaneous time - HR : Hours of remedial classes. - Per. (Period), Y=Year, Q1=1st term et Q2=2nd term
Date de génération : 02/05/2019
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