added link to google doc and personal notes (JC)

Author: jcolomb

.gitignore

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+.Rproj.user
+.Rhistory
+.RData
+.Ruserdata

JC_notes/Material/List of subtopics.Rmd

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+---
+title: "sub_Topics"
+output: html_document
+---
+---
+(make changes here = https://docs.google.com/document/d/1KuTSECSYHXZmZX15GDjyD65pJ90eRMhHVEZ-1trsw30/edit#)
+
+this should be put into a speadsheet anyway.
+
+#Sub-topics to be covered
+
+## Workflow and generalities
+
+### Computer and human readability
+### Data management plan
+### Save information and find it again
+### Share in the lab as a test
+
+## Data publication (FAIR)
+
+### Definition and history of FAIR principles
+### Other principles
+### FAIR is not open
+### CC0 as a license
+### Sensitive data and anonimisation
+### Repositories and the role of librarries.
+
+## Data literacy
+
+### Raw and primary data
+### Spreadsheet: tidyness
+### Spreadsheet: excel pitfalls
+### Interoperability: from vocabulary to ontologies
+
+## Data management
+### Metadata: basic scheme for data publication
+### Metadata: additional information for your data
+### Folder organisation
+
+## Version control and data
+### Principles
+### Using git ?
+
+
+
+## Specifics for material and methods
+### Material: inventories, author reagent table
+### Material: identificators (RRID)
+### Methods: versioning, protocols.io
+### Publish and make accessibility
+

JC_notes/Material/List_of_subtopics.html

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+---
+title: "JCnotes_master"
+output: 
+  html_document:
+    toc : TRUE
+---
+
+# 2-day workshops topics
+
+###version 1
+
+  1. Open science workflow (introduction)
+ 2.  data literacy (formats, FAIR, open)
+ 3.  metadata and data organisation
+  1.  open material and methods (protocols.io, lab inventory, material sharing )
+ 4.  *data analysis documentation. (part of module 3)*
+
+###version 2
+
+
+1. tidy data
+2. from glossaries to ontologies: data interoperability
+3. Version control: git and github
+4. *Reproducible report in Rmarkdown (part of module 3)*
+
+# existing material
+
+- introduction
+- data literacy:
+  - raw/primary data
+  - tidy spreadsheet
+  - interoperability
+  - excel versus .csv
+  - 
+    

JC_notes/jcnotes_master.Rmd

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+Version: 1.0
+
+RestoreWorkspace: Default
+SaveWorkspace: Default
+AlwaysSaveHistory: Default
+
+EnableCodeIndexing: Yes
+UseSpacesForTab: Yes
+NumSpacesForTab: 2
+Encoding: UTF-8
+
+RnwWeave: Sweave
+LaTeX: pdfLaTeX

Module-4-Open-Research-Data.Rproj

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-# Module-4-Open-Data
+# Module-4-Open-Data
+
+We are still using google doc at the moment to gather inputs.
+
+make changes here = https://docs.google.com/document/d/1KuTSECSYHXZmZX15GDjyD65pJ90eRMhHVEZ-1trsw30/edit#