I’ve added directories and updated the DESCRIPTION file as well as the
README.md.
masanao-yajima authored on 17/03/2017 13:35:19
| ... | ... |
@@ -7,10 +7,18 @@ Description: celda leverages Bayesian hierarchical modeling to cluster genes, |
| 7 | 7 |
cells, or both simultaneously from single cell sequencing data. |
| 8 | 8 |
Depends: |
| 9 | 9 |
R (>= 3.2.2) |
| 10 |
-License: MIT |
|
| 11 |
-Encoding: UTF-8 |
|
| 12 |
-LazyData: true |
|
| 13 | 10 |
Imports: |
| 14 | 11 |
gtools, |
| 15 | 12 |
entropy |
| 13 |
+Suggests: |
|
| 14 |
+ testthat, |
|
| 15 |
+ knitr, |
|
| 16 |
+ roxygen2 |
|
| 17 |
+VignetteBuilder: |
|
| 18 |
+ knitr |
|
| 19 |
+License: MIT |
|
| 20 |
+Encoding: UTF-8 |
|
| 21 |
+LazyData: true |
|
| 16 | 22 |
RoxygenNote: 5.0.1 |
| 23 |
+BugReports: |
|
| 24 |
+ https://github.com/definitelysean/celda/issues |
| ... | ... |
@@ -1,2 +1,17 @@ |
| 1 | 1 |
# celda |
| 2 |
-CELlular Latent Dirichlet Allocation |
|
| 2 |
+ |
|
| 3 |
+# celda: CELlular Latent Dirichlet Allocation |
|
| 4 |
+ |
|
| 5 |
+Description |
|
| 6 |
+ |
|
| 7 |
+## Examples and vignettes |
|
| 8 |
+ |
|
| 9 |
+Vignettes are available in the package via vignette('celda-intro').
|
|
| 10 |
+ |
|
| 11 |
+## New Features and announcements |
|
| 12 |
+ |
|
| 13 |
+ |
|
| 14 |
+## Installation Instructions |
|
| 15 |
+ |
|
| 16 |
+library(devtools) |
|
| 17 |
+install_github("definitelysean/celda")
|
| 1 | 3 |
new file mode 100644 |
| ... | ... |
@@ -0,0 +1,32 @@ |
| 1 |
+--- |
|
| 2 |
+title: "The Legend of celda" |
|
| 3 |
+author: "Vignette Author" |
|
| 4 |
+date: "` r Sys.Date()`" |
|
| 5 |
+output: rmarkdown::html_vignette |
|
| 6 |
+vignette: > |
|
| 7 |
+ %\VignetteIndexEntry{Vignette Title}
|
|
| 8 |
+ %\VignetteEngine{knitr::rmarkdown}
|
|
| 9 |
+ \usepackage[utf8]{inputenc}
|
|
| 10 |
+--- |
|
| 11 |
+```{r setup, include=FALSE}
|
|
| 12 |
+knitr::opts_chunk$set(echo = TRUE,fig.width=8,fig.height=7 , |
|
| 13 |
+ out.width="0.7\\linewidth", fig.align = "center") |
|
| 14 |
+oldpar <- par() |
|
| 15 |
+par(mar=c(3,3,2,1), mgp=c(2,.7,0), tck=-.01) |
|
| 16 |
+ |
|
| 17 |
+library(RColorBrewer) |
|
| 18 |
+library(ggplot2) |
|
| 19 |
+``` |
|
| 20 |
+ |
|
| 21 |
+# to be written |
|
| 22 |
+ |
|
| 23 |
+```{r}
|
|
| 24 |
+ |
|
| 25 |
+``` |
|
| 26 |
+ |
|
| 27 |
+ |
|
| 28 |
+ |
|
| 29 |
+```{r cleaning_up,echo=FALSE}
|
|
| 30 |
+par(oldpar) |
|
| 31 |
+sessionInfo() |
|
| 32 |
+``` |
|
| 0 | 33 |
\ No newline at end of file |