21 Jan |
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Introductory case study ![notes icon](/AdvData/icons/notes-icon.png) |
23 Jan |
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Reproducible research ![notes icon](/AdvData/icons/notes-icon.png) |
28 Jan |
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Simulations: genomes of recombinant inbred lines ![notes icon](/AdvData/icons/notes-icon.png) |
30 Jan |
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R Markdown ![notes icon](/AdvData/icons/notes-icon.png) |
4 Feb |
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EM algorithm: T cell frequencies ![notes icon](/AdvData/icons/notes-icon.png) |
6 Feb |
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Know the command line; know your editor ![notes icon](/AdvData/icons/notes-icon.png) |
11 Feb |
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EM algorithm: QTL mapping with a cure model ![notes icon](/AdvData/icons/notes-icon.png) |
13 Feb |
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Git and GitHub ![notes icon](/AdvData/icons/notes-icon.png) |
18 Feb |
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Git/GitHub laboratory ![pdf icon](/AdvData/icons/pdf-icon.png) |
20 Feb |
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Model misspecification: Estimating allele frequencies ![notes icon](/AdvData/icons/notes-icon.png) |
25 Feb |
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Sample mix-ups in eQTL data ![notes icon](/AdvData/icons/notes-icon.png) |
27 Feb |
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Organizing collaborative projects; capturing exploratory analysis ![notes icon](/AdvData/icons/notes-icon.png) |
3 Mar |
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Data diagnostics for multiparent populations ![notes icon](/AdvData/icons/notes-icon.png) |
5 Mar |
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Writing clear code ![notes icon](/AdvData/icons/notes-icon.png) |
10 Mar |
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Bayes/MCMC: Transposon mutagenesis ![notes icon](/AdvData/icons/notes-icon.png) |
12 Mar |
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Wrangling messy data files ![notes icon](/AdvData/icons/notes-icon.png) |
17,19 Mar |
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No class (spring break) |
24 Mar |
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Bootstrap confidence intervals for QTL location ![video icon](/AdvData/icons/video-icon.png) |
26 Mar |
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Writing R packages; roxygen2 ![video icon](/AdvData/icons/video-icon.png) |
31 Mar |
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Data visualization ![video icon](/AdvData/icons/video-icon.png) |
2 Apr |
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Software testing and debugging ![video icon](/AdvData/icons/video-icon.png) |
7 Apr |
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Permutation test with selective genotyping ![video icon](/AdvData/icons/video-icon.png) |
9 Apr |
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Big jobs/simulations; caching computations ![video icon](/AdvData/icons/video-icon.png) |
14 Apr |
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Building regression models: Multiple-QTL analysis ![video icon](/AdvData/icons/video-icon.png) |
16 Apr |
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R Markdown for papers ![video icon](/AdvData/icons/video-icon.png) |
21 Apr |
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Dissecting and fine-mapping trans-eQTL hotspots ![video icon](/AdvData/icons/video-icon.png) |
23 Apr |
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Containers for reproducibility ![video icon](/AdvData/icons/video-icon.png) |
28 Apr |
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Developing, maintaining, and supporting software: R/qtl ![video icon](/AdvData/icons/video-icon.png) |
30 Apr |
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Software/data licenses, copyright, and human subjects/HIPAA ![video icon](/AdvData/icons/video-icon.png) |