From 75a6d672d7fbb82c12bce9d0a889ae8d60c62332 Mon Sep 17 00:00:00 2001 From: Paul Staab Date: Fri, 16 Oct 2015 10:11:51 +0200 Subject: [PATCH] link vignettes on CRAN instead of rpub.com --- README.md | 9 +++++---- .../abc.Rmd/rpubs.com/rpubs/Publish Document.dcf | 7 ------- .../rpubs.com/rpubs/Publish Document.dcf | 7 ------- .../rpubs.com/rpubs/Publish Document.dcf | 7 ------- 4 files changed, 5 insertions(+), 25 deletions(-) delete mode 100644 vignettes/rsconnect/documents/abc.Rmd/rpubs.com/rpubs/Publish Document.dcf delete mode 100644 vignettes/rsconnect/documents/installation.Rmd/rpubs.com/rpubs/Publish Document.dcf delete mode 100644 vignettes/rsconnect/documents/introduction.Rmd/rpubs.com/rpubs/Publish Document.dcf diff --git a/README.md b/README.md index f284489..976dac4 100644 --- a/README.md +++ b/README.md @@ -9,7 +9,7 @@ coala Coala is an R package that allows to simulate biological sequences according to a given model of evolution. It can call a number of efficient simulators based on -[Coalescent Theory](https://en.wikipedia.org/wiki/Coalescent_theory). +[coalescent theory](https://en.wikipedia.org/wiki/Coalescent_theory). All simulators can be combined with the program _seq-gen_ to simulate finite site mutation models. Coala also directly imports the simulation results into `R`, and allows to @@ -31,14 +31,15 @@ install.packages("coala") If you want to use the simulation programs `ms`, `msms` or `seqgen`, they need to be installed separately. This is described in the -["Using External Simulators" vignette](http://rpubs.com/paulstaab/coala-installation). +["Using External Simulators" vignette](https://cran.r-project.org/web/packages/coala/vignettes/installation.html). Usage ----- -Coala comes with a [vignette](http://rpubs.com/paulstaab/coala-introduction) +Coala comes with a +[vignette](https://cran.r-project.org/web/packages/coala/vignettes/introduction.html) that explains the packages concepts and is a good place to start. -The [ABC vignette](http://rpubs.com/paulstaab/coala-abc) gives an example +The [ABC vignette](https://cran.r-project.org/web/packages/coala/vignettes/abc.html) gives an example on how coala can be used to conduct the simulations for an Approximate Bayesian Computation analysis. diff --git a/vignettes/rsconnect/documents/abc.Rmd/rpubs.com/rpubs/Publish Document.dcf b/vignettes/rsconnect/documents/abc.Rmd/rpubs.com/rpubs/Publish Document.dcf deleted file mode 100644 index fb9bd89..0000000 --- a/vignettes/rsconnect/documents/abc.Rmd/rpubs.com/rpubs/Publish Document.dcf +++ /dev/null @@ -1,7 +0,0 @@ -name: Publish Document -account: rpubs -server: rpubs.com -bundleId: - https://api.rpubs.com/api/v1/document/92800/b84f8c8faa7d401bbd60e2f5ddbfbbe0 -url: http://rpubs.com/paulstaab/92800/edit -when: 1437120850.48678 diff --git a/vignettes/rsconnect/documents/installation.Rmd/rpubs.com/rpubs/Publish Document.dcf b/vignettes/rsconnect/documents/installation.Rmd/rpubs.com/rpubs/Publish Document.dcf deleted file mode 100644 index 123543d..0000000 --- a/vignettes/rsconnect/documents/installation.Rmd/rpubs.com/rpubs/Publish Document.dcf +++ /dev/null @@ -1,7 +0,0 @@ -name: Publish Document -account: rpubs -server: rpubs.com -bundleId: - https://api.rpubs.com/api/v1/document/92300/89b513b22a804cc593e97f1f8be34730 -url: http://rpubs.com/paulstaab/92300 -when: 1437120891.0099 diff --git a/vignettes/rsconnect/documents/introduction.Rmd/rpubs.com/rpubs/Publish Document.dcf b/vignettes/rsconnect/documents/introduction.Rmd/rpubs.com/rpubs/Publish Document.dcf deleted file mode 100644 index b2d4ce0..0000000 --- a/vignettes/rsconnect/documents/introduction.Rmd/rpubs.com/rpubs/Publish Document.dcf +++ /dev/null @@ -1,7 +0,0 @@ -name: Publish Document -account: rpubs -server: rpubs.com -bundleId: - https://api.rpubs.com/api/v1/document/89494/2e2530d765cb4bcbad8389c32491f031 -url: http://rpubs.com/paulstaab/89494 -when: 1437120917.84023