incidence

incidence copied to clipboard

add tidy_incidence and glance_incidence for broom like tibble outputs

6

Currently `get_info` generate vector class outputs, isolated from their metadata. For `tidyverse` users, this output could be cleaner, more explicit and easy to manage if the output is a dataframe...

avallecam

estimate growth rate r using Poisson glm instead of log-linear model

4

The way the exponential growth rate is estimated here currently (in `fit()`) is to use a log-linear model (linear model similar to `lm(log(incidence) ~ date)`. For the log to work...

ffinger

Chowell et al. 2016 published a paper entitled “[Mathematical models to characterize early epidemic growth: A review](https://www.sciencedirect.com/science/article/pii/S1571064516300641)”, in which they review recent progress on modeling and characterizing early epidemic growth...

caijun

"Non-zero exit status"

1

Hi, When I install packages in my Rstudio, i found non-zero exit status and i can't install packages at all. Best Kyaw

kyawmyotun

This makes things difficult for users if they want to acknowledge that there exists a group that they haven't yet sampled. ``` r g [1,] 1 i #> #> [1...

zkamvar

Add option to calculate/plot rolling averages

7

This comes from https://github.com/R4EPI/sitrep/issues/70#issuecomment-466289656

zkamvar

"Count over time" vs "incidence rate"

8

I am not too sure, but I feel that the term incidence is used in a wrong way in this package. The way I understand it, at the moment we...

jakobschumacher

Restructure incidence object as data frame to allow for facetting

11

This is a tricky one, since we aggregate data into the `$counts` matrix, but it would be nice to be able to combine plotting `incidence` objects with a `group` for...

thibautjombart

Make sure to add a GITHUB_PAT with write capabilities to Travis CI for this to work

stephlocke

Add example of using border color to show zero cases

3

@annecori has brought up the fact that the default incidence plots are ambiguous as to when the start and end dates are (e.g. it's difficult to tell if the end...

zkamvar