|
|
@@ -0,0 +1,105 @@
|
|
|
+# responsible people for data management
|
|
|
+
|
|
|
+Please list here everyone who can access the data during the project (one person per line, please add role(s) for each person):
|
|
|
+- Governor: Data governance (co-)lead (person legally responsible)
|
|
|
+- Collector: data collectionr (on behalf of the responsible person(s))
|
|
|
+- Analyst: use of the data, analysis, processing (on behalf of the responsible person(s))
|
|
|
+- Steward XX: consultation and help with access to the data
|
|
|
+
|
|
|
+```
|
|
|
+Example:
|
|
|
+- Julien Colomb, Steward
|
|
|
+````
|
|
|
+
|
|
|
+# data flow : list of questions (for each type of experiment):
|
|
|
+
|
|
|
+## exp1: TITLE
|
|
|
+ ### Data information
|
|
|
+- file naming and organisation conventions,
|
|
|
+- type of version control
|
|
|
+- raw data formats,
|
|
|
+- data analysis software
|
|
|
+- results format,
|
|
|
+- data sharing format,
|
|
|
+- data archive format,
|
|
|
+- metadata content, format and schema,
|
|
|
+- specific keywords,
|
|
|
+- vocabularies, taxonomies and ontologies used,
|
|
|
+- repositories used for publication
|
|
|
+### Experimental design information
|
|
|
+
|
|
|
+Experimentator blinding, and randomisation strategy:
|
|
|
+Animal information sheet:
|
|
|
+Study design (groups, sample type, sample size and rational for these decisions)
|
|
|
+Inclusion and exclusion criteria
|
|
|
+
|
|
|
+```
|
|
|
+Example:
|
|
|
+
|
|
|
+Drosophila learning/memory experiments
|
|
|
+======================================
|
|
|
+
|
|
|
+File naming convention:
|
|
|
+-----------------------
|
|
|
+YYYY-MM-DD_ShortNameExperiment
|
|
|
+
|
|
|
+vestion control:
|
|
|
+----------------
|
|
|
+- no version suffix, version control via GIT in GIN (small text files only)
|
|
|
+
|
|
|
+Details:
|
|
|
+--------
|
|
|
+- We produce one spreadsheet for each experiment, following a template (link to template)
|
|
|
+- One folder named YYYY-MM-DD_ShortName_Experiment (data of start of experiment) contains:
|
|
|
+ - one readme.md file for text notation and explanations
|
|
|
+ - one metadata spreadsheet, indicating genotype and treatment code, age of flies at experiment
|
|
|
+ - The data spreadsheet, in a .tsv format
|
|
|
+ - It may also contain a result figure.
|
|
|
+
|
|
|
+- Data will be published in this form (.tsv and .md files) at publication, on GIN.
|
|
|
+- Data analysis is done via R scripts present in the analysis folder, figures are saved (named using the same convention) in the figure folder as `.pdf` files.
|
|
|
+
|
|
|
+Taxonomies used:
|
|
|
+- fly lines using flybase code
|
|
|
+- fly genes as keywords using flybase code
|
|
|
+```
|
|
|
+
|
|
|
+# other data types
|
|
|
+
|
|
|
+## Reagents:
|
|
|
+- Versioning
|
|
|
+- Publication
|
|
|
+ - PID
|
|
|
+ - dissemination/repository
|
|
|
+- licensing
|
|
|
+
|
|
|
+## Software and code:
|
|
|
+- Versioning
|
|
|
+- Publication
|
|
|
+ - PID
|
|
|
+ - dissemination/repository
|
|
|
+- licensing
|
|
|
+
|
|
|
+- tests
|
|
|
+- containerization
|
|
|
+
|
|
|
+## Hardware documentation:
|
|
|
+- Versioning
|
|
|
+- Publication
|
|
|
+ - PID
|
|
|
+ - dissemination/repository
|
|
|
+- licensing
|
|
|
+## Dataset research results and project management documentation (ELN)
|
|
|
+- Versioning
|
|
|
+- Publication
|
|
|
+ - PID
|
|
|
+ - dissemination/repository
|
|
|
+- licensing
|
|
|
+
|
|
|
+# Ressources (viruses, transgenics, ...)
|
|
|
+
|
|
|
+
|
|
|
+
|
|
|
+## data archive: where
|
|
|
+
|
|
|
+
|
