Week2-3
In terms of content, please address these points:
concise overview of things learned - break it up into technical area, tools, and soft skills
Technical Area: Learned about how gcrma operate compare to arms.
Tools: R studio, varies packages
Soft skills: Communicating with people from different timezone
three achievement highlights
Found out how to plot pca
Found out how to do batch correction
Found out how to do heatmap
list of meetings attended including social team events
Just Monday and Tuesday meetings
goals for the upcoming week
Communicate with teammate more
Attend more meetings
detailed statement of tasks done - specifically challenges and how those challenges were overcome
Four deliverables.
I really have problems doing pca plots, first not sure about if I should add sdev to calculate a percentage for the plot, second I’m not sure how to do the before normalization plot, latter found out I can use exprs() on the raw dataset.
Week4
In terms of content, please address these points:
concise overview of things learned - break it up into technical area, tools, and soft skills
Technical Area: Learned about how to do limma analysis and gene filtering and the concept behind those methods.
Tools: R studio, varies packages
Soft skills: Select genes that are significant, Make hypothesis for next weeks.
three achievement highlights
Found out how to plot volcano plot
Found out how to do gene filtering
Found out how to do limma analysis
list of meetings attended including social team events
Just Tuesday meetings
goals for the upcoming week
Being a Task lead
Attend more meetings
detailed statement of tasks done - specifically challenges and how those challenges were overcome
Three deliverables.
I have problems in get the CollapseRows() and topTable() work. And keeping track of my variables.
Week5
In terms of content, please address these points:
concise overview of things learned - break it up into technical area, tools, and soft skills
Technical Area: Learned about how to do enrichment analysis and plot appropriate graphs for them. And do analysis according to the results.
Tools: R studio, varies packages
Soft skills: Analysis if our hypothesis from last week is appropriate. Revise our thesis through our experiment.
three achievement highlights
Learn how to do GSEA()
Learn how to use enriched()
Learn how to use EnrichGo()
list of meetings attended including social team events
Just Tuesday meetings
goals for the upcoming week
Individual Presentation
detailed statement of tasks done - specifically challenges and how those challenges were overcome
All deliverables.
Week7 Final week
In terms of content, please address these points:
concise overview of things learned - break it up into technical area, tools, and soft skills
Technical Area: Learned about how to do enrichment analysis and plot appropriate graphs for them. And do analysis according to the results.
Tools: R studio, varies packages
Soft skills: Do individual presentation about a small project. Organize everything
three achievement highlights
Learn to interpret all the graphs generated from R
Learn to explain why each step in the pipeline is important
Learn to collaborate with other three people for a bioinformatic project
list of meetings attended including social team events
Final Presentation
goals for the upcoming week
Finished!
detailed statement of tasks done -
A small study that based on geneset GEO22598
All deliverables.
Small presentation by myself