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Welcome to the Computational Lab Syllabus:
Jan 13: Welcome, Overview, Introductions
Jan 15: Download and set up tools needed for class
[Jan 17: Tour of CU Super computer]
[Jan 22: Welcome to Fiji by BioFrontiers IT]
Jan 24: $Bashing Code & SSH to Fiji
Jan 31: Nextflow intro / install
Feb 3: Overview of Big Data to analyze!
Feb 5: RNAseq Pipeline Run (I)
Feb 7: RNAseq Pipeline Run (II)
Feb 10: RNAseq Pipeline output
Feb 17: Deseq2 RNAseq Differential Expression (I)
Feb 19: Deseq2 RNAseq Differential Expression (II)
Feb 21: Analyze RNAseq Results (I)
Feb 24: BIOFRONTIERS GENOMICS TALKS JSCBB A115
Feb 24: Analyze RNAseq Results (II) video
Feb 26: Analyze RNAseq Results (III)
Feb 28: Visualization GGPLOT2 (I)
Mar 3: Visualization GGPLOT2 (II)
Mar 5: Visualization GGPLOT2 (III)
Mar 7: TPM Plots / make your own functions
Mar 10: Heatmaps / Raw Data visualization
Mar 12: Set up ATACseq Pipeline
Mar 14: ATACseq Pipeline output files
[Mar 24-28](Spring Break)
Mar 31 *** VIRTUAL ****: Granges II
Apr 4: Peak overlap across replicates
Apr 7: Peaks to Genome Features
Apr 9: Peaks Changing Over Time
Apr 11: DESEQ2 on ATACseq data
Apr 14: **** Virtual **** Knitting it all together
[Apr 16 **** Virtual ******](Group choose your own adventure analyses)
[Apr 18](Group choose your own adventure analyses)
[Apr 21](Group choose your own adventure analyses)
[Apr 23](Group choose your own adventure analyses)
[Apr 25](Group choose your own adventure analyses)
[Apr 28](Group choose your own adventure analyses)
[Apr 30](Group choose your own adventure analyses)