1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
|
---
output: github_document
---
<!-- README.md is generated from README.Rmd. Please edit that file. -->
```{r, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>"
)
```
# Rnaught <a href="https://MI2YorkU.github.io/Rnaught"><img src="man/figures/logo.svg" align="right" height="139" alt="Rnaught Logo"></a>
Rnaught is an R package and web application for estimating the
[basic reproduction number (*R*<sub>0</sub>)](
https://en.wikipedia.org/wiki/Basic_reproduction_number) of infectious diseases.
An instance of the web application is available at
<https://immune.math.yorku.ca/Rnaught>.
## Installation
You can install the development version of Rnaught using the [devtools](
https://devtools.r-lib.org) package. Run the following commands in an R session:
``` r
install.packages("devtools") # If not already installed.
devtools::install_github("MI2YorkU/Rnaught", build_vignettes = TRUE)
```
## Documentation
The package documentation is available online at
<https://MI2YorkU.github.io/Rnaught>.
For a quick introduction, see the [Get started](
https://MI2YorkU.github.io/Rnaught/articles/Rnaught.html) page. This can also be
accessed from an R session with `vignette("Rnaught", package = "Rnaught")`.
To view the documentation locally, run `?Rnaught::<function>`. A list of all
functions is shown in the package index by executing
`help(package = "Rnaught")`.
## Contributing
The source code for this package is available on
[GitHub](https://github.com/MI2YorkU/Rnaught).
To report a bug, request a new feature, give feedback, or ask questions, open a
new [issue](https://github.com/MI2YorkU/Rnaught/issues).
Submit new estimators, features, bug fixes, or patches by creating a
[pull request](https://github.com/MI2YorkU/Rnaught/pulls).
## License
This program is free software: you can redistribute it and/or modify it under
the terms of the GNU Affero General Public License as published by the Free
Software Foundation, either version 3 of the License, or (at your option) any
later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY
WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE. See the GNU Affero General Public License for more details.
You should have received a copy of the GNU Affero General Public License along
with this program. If not, see <https://www.gnu.org/licenses>.
|
