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babs4/week2/prepare
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3mmaRand committed Feb 14, 2024
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## Experimental design and aims

- We only expect to see red fluorescence (APC) if the treatment induces TNF-α
production in macrophages and the TNF-α antibody is used.
production in macrophages *and* the TNF-α antibody is used.

- We only expect to see green fluorescence (APC) if the treatment is *E. coli*
- We only expect to see green fluorescence (FITC) if the treatment is *E. coli*

- This is summarised in the figure on the next page

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- Apply a "logicle" transformation using the **`flowCore`** package

- Put the data into a dataframe to make it easy to use **`tidyverse`** [@tidverse] tools like
- Put the data into a dataframe to make it easy to use **`tidyverse`** [@tidyverse] tools like
`group_by()`, `summarise()`, `ggplot()`, `filter()`

:::
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