hexylena
commented
2 years ago - Day 1, day 1, Introduction to Unix (3 hours, do the class in cocalc, give commandline access to the server already, via mobaxterm for homework and project; need to skim down the tutorials, merge and consult from existing tutorials (homework: bashcrawl, hand in the history)
- [x] What is Bioinformatics? (lecture of 1 hour) https://www.melbournebioinformatics.org.au/tutorials/guides/bioinfo/
- [x] Intro to CLI (2h of hands-on) https://training.galaxyproject.org/training-material/topics/data-science/tutorials/cli-basics/tutorial.html
- [x] Introduction to the Galaxy Platform (preparation selfstudy with a link) https://training.galaxyproject.org/training-material/topics/introduction/tutorials/galaxy-intro-101-everyone/tutorial.html
- [x] Introduction to Galaxy Workflows (preparation selfstudy with a link) https://training.galaxyproject.org/training-material/topics/galaxy-interface/tutorials/workflow-editor/tutorial.html
- [x] :writing_hand: @hexylena
- [x] :detective: @miaomiaozhou88 review
- [x] :heavy_check_mark: @bazante1
- Day 2, Assembly (old lesson),
- [x] :writing_hand: @miaomiaozhou88
- [ ] :detective: @hexylena
- [ ] :heavy_check_mark: @bazante1
- Day 3: commandline: mapping
- [x] :writing_hand: @miaomiaozhou88
- [ ] :detective: @hexylena
- [ ] :heavy_check_mark: @bazante1
- Day 4: variant calling and interpretation of SNP
- [x] :writing_hand: @miaomiaozhou88
- [ ] :detective: @hexylena
- [ ] :heavy_check_mark: @bazante1
- Day 5: Mauve + genome viewer
- [ ] :writing_hand: @miaomiaozhou88
- [ ] :detective: @hexylena
- [ ] :heavy_check_mark: @bazante1
- Day 6 Genome Annotation (60 minutes), Introduction to Git and Github ( 1 hours + 0.5 questioning hour, revise, keep step 1 and 2, make more windows friendly, Bazante draft, @miaomiaozhou88 + @hexylena review)
- [x] :writing_hand: @bazante1 @Dirowa
- [x] :detective: @hexylena
- [ ] :heavy_check_mark: @miaomiaozhou88
- Day 7 Workflow Language for Bioinformatics (snakemake , need to clean up the tutorial, design a workflow ==>excercise : make a snakemake pipeline for your work in day 3,4,5.
- [x] Written https://training.galaxyproject.org/training-material/topics/data-science/tutorials/snakemake/tutorial.html
- [x] Reviewed
- [x] Published