diff --git a/Comp/r-sas-summary-stats.html b/Comp/r-sas-summary-stats.html index b523b407..d596485e 100644 --- a/Comp/r-sas-summary-stats.html +++ b/Comp/r-sas-summary-stats.html @@ -141,6 +141,21 @@
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diff --git a/Comp/r-sas_chi-sq.html b/Comp/r-sas_chi-sq.html index 7f68d166..4b3b565c 100644 --- a/Comp/r-sas_chi-sq.html +++ b/Comp/r-sas_chi-sq.html @@ -143,6 +143,21 @@
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diff --git a/Comp/r-sas_cmh.html b/Comp/r-sas_cmh.html index 46d2b724..6b8a6eb0 100644 --- a/Comp/r-sas_cmh.html +++ b/Comp/r-sas_cmh.html @@ -107,6 +107,21 @@
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CMH Statistics

-
- diff --git a/Comp/r-sas_kruskalwallis.html b/Comp/r-sas_kruskalwallis.html index 7999ef3a..f0a5da1c 100644 --- a/Comp/r-sas_kruskalwallis.html +++ b/Comp/r-sas_kruskalwallis.html @@ -141,6 +141,21 @@
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The Model

model_glance %>% gt()
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The Model

model_tidy   %>% gt()
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The Model

model_table %>% gt()
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Type 1

gt()
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Type 2

gt()
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Type 3

gt()
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Available R packages<
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Request for Cont
  • R template

    • Instructions for Contributions to the CAMIS repository

    +

    The following instructions assume you have not done a contribution in the past. If you have contributed in the past skip down to step 5

      -

    1. Set up RStudio to clone the CAMIS github repo – See this guidance for more detail

      2. -

    2. If this is your first contribution, contact christina.e.fillmore@gsk.com and give her your github username, requesting to access the CAMIS repo for contributions

      3. -

    3. Go into RStudio and Create a branch –Within RStudio click the branch button (on the git tab top right). Within the box that comes up ensure you are on the “remote=origin” and “Sync branch with remote” is checked. You can name the branch something to do with the amends you intend to make.

      4. +

    4. You will need to get git, github, and RStudio setup to talk to each other. To do this you will need to have a github account and git installed on your computer. To connect your computer to github, we tend to recommend using a PAT because it is bit easier than SSH. We have a script that can help you set that up, found here. For more information Jenny Bryan has a great bookdown explaining how to get setup, alternatively see the following link for a short guidance.

      5. +

    5. Now with RStudio all setup, you will need to “fork” the repository, which basically mean you want to make a copy of this repository that you own, so it will be under your github profile. This will allow you to make changes, without needing direct permission. To do this you will need to go into github, into the CAMIS repo, and click “fork”. This will give you some options of how you want to fork the repo, honestly you can just keep the defaults and then click “Create fork”

      +

      6. +

    6. Once you’ve created a copy of this repository, you’ll need to clone it from GitHub to your computer. Click the “code” button to do this. The method you’ll use, either “HTTPS” or “SSH”, depends on how you’ve connected your computer to GitHub. If you’ve set up using a PAT, select the “HTTPS” tab. If you’ve used “SSH”, then choose that tab. Either way, you will need to copy the location in the box.

      +

      7. +

    7. In RStudio, you will need to create a new project and select “Version Control” in the project wizard. Then you will select “Git” and finally paste the location copied from github into the URL box. Finally hit “Create Project” and you should be good to go!

      +

      8. +

    8. Go into RStudio and Create a branch – Give you are working from your own fork, this step it is a bit optional. It is up to you if you want to make a separate branch or not. But, it is generally considered good practice, especially if you are planning on contributing regularly. To do this from RStudio click the branch button (on the git tab top right). Within the box that comes up ensure you are on the “remote=origin” and “Sync branch with remote” is checked. You can name the branch something to do with the amends you intend to make.

    9. Edit and /or add files within the CAMIS directories. If you are adding SAS guidance store under sas folder, R guidance store under r folder, for “SAS vs R” comparison store under comp. Follow the naming convention of the files already stored in those folders.

      10. -

    10. Within R studio - Commit each change or new file added, and push to the repo from within R studio.

      11. -

    11. Go into github and do a pull request to sync your branch back to the origin. See create a pull request for more detail. Note that your change will need a reviewer, so please add DrLynTaylor and statasaurus as reviewers.

      12. -

    12. Once your change is approved, and merged into the origin, the branch will be deleted and you will need to create a new branch to add further contributions. NOTE: you can make the new branch called the same as the old one if you wish but ensure you select to overwrite the previous one.

      13. +

    13. Within R studio - Commit each change or new file added, and push to the repo from within R studio. Once you have completed the change you want to make, it is time for a pull request. Before we start though, it is good to check that your branch on github contains all the update you have done. If not you may need to push from Rstudio before moving onto the pull request.

      +This is what it will look like if you still need to push
      14. +

    14. Pull request in github - Back on your fork in github you will see that your repo is now ahead of the main CAMIS repository. The first thing you want to do is make sure there aren’t any conflict that have arisen with the main repository, so you need to click ‘Sync fork’.

      +

      +

      If that is all good then you can create a pull request by clicking on ‘Contribute’ and then ‘Open pull request’. This brings you to a page where you can explain your pull request if you like or you can just confirm you would like to go through with this pull request. The final step is to add a reviewer, please add DrLynTaylor and statasaurus. For more details about making pull requests see create a pull request.

      15. +

    15. Once your change is approved, and merged into the origin, you will be able to see your changes on CAMIS. If you have made a branch in your fork the branch will be deleted and you will need to create a new branch to add further contributions. NOTE: you can make the new branch called the same as the old one if you wish but ensure you select to overwrite the previous one.

    diff --git a/data-info/sas_disease.html b/data-info/sas_disease.html index 5f7ae9d4..4b57ff09 100644 --- a/data-info/sas_disease.html +++ b/data-info/sas_disease.html @@ -107,6 +107,21 @@
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    diff --git a/images/contributions/clone.png b/images/contributions/clone.png new file mode 100644 index 00000000..b4aa025a Binary files /dev/null and b/images/contributions/clone.png differ diff --git a/images/contributions/clone2.png b/images/contributions/clone2.png new file mode 100644 index 00000000..53dc694f Binary files /dev/null and b/images/contributions/clone2.png differ diff --git a/images/contributions/forking.png b/images/contributions/forking.png new file mode 100644 index 00000000..5906f8e5 Binary files /dev/null and b/images/contributions/forking.png differ diff --git a/images/contributions/make-pr.png b/images/contributions/make-pr.png new file mode 100644 index 00000000..87ee054f Binary files /dev/null and b/images/contributions/make-pr.png differ diff --git a/images/contributions/push.png b/images/contributions/push.png new file mode 100644 index 00000000..73be477f Binary files /dev/null and b/images/contributions/push.png differ diff --git a/index.html b/index.html index f250a0fe..1a31c98b 100644 --- a/index.html +++ b/index.html @@ -107,6 +107,21 @@
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    Motivation

    -
    - diff --git a/minutes/index.html b/minutes/index.html index 34ced85d..9e04b313 100644 --- a/minutes/index.html +++ b/minutes/index.html @@ -140,6 +140,21 @@
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    @@ -178,7 +193,7 @@

    Meeting Minutes

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    @@ -203,7 +218,7 @@

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    diff --git a/minutes/posts/10July2023.html b/minutes/posts/10July2023.html index 38106c5a..b3cb086c 100644 --- a/minutes/posts/10July2023.html +++ b/minutes/posts/10July2023.html @@ -108,6 +108,21 @@
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    diff --git a/minutes/posts/13Feb2023.html b/minutes/posts/13Feb2023.html index c414dca5..c58b7775 100644 --- a/minutes/posts/13Feb2023.html +++ b/minutes/posts/13Feb2023.html @@ -108,6 +108,21 @@
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    diff --git a/minutes/posts/15May2023.html b/minutes/posts/15May2023.html index a1932614..3dc95b2e 100644 --- a/minutes/posts/15May2023.html +++ b/minutes/posts/15May2023.html @@ -108,6 +108,21 @@
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    diff --git a/minutes/posts/19June2023.html b/minutes/posts/19June2023.html index c3da7173..0e07c3ef 100644 --- a/minutes/posts/19June2023.html +++ b/minutes/posts/19June2023.html @@ -108,6 +108,21 @@
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    diff --git a/minutes/posts/21Aug2023.html b/minutes/posts/21Aug2023.html index ba8374e8..f4d2a97c 100644 --- a/minutes/posts/21Aug2023.html +++ b/minutes/posts/21Aug2023.html @@ -108,6 +108,21 @@
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    diff --git a/minutes/posts/23Jan2023.html b/minutes/posts/23Jan2023.html index 5533914b..37fddb09 100644 --- a/minutes/posts/23Jan2023.html +++ b/minutes/posts/23Jan2023.html @@ -108,6 +108,21 @@
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    diff --git a/minutes/posts/9oct2023.html b/minutes/posts/9oct2023.html index eaddb4a1..0bbb65df 100644 --- a/minutes/posts/9oct2023.html +++ b/minutes/posts/9oct2023.html @@ -108,6 +108,21 @@
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    diff --git a/search.json b/search.json index 053e848d..73b10317 100644 --- a/search.json +++ b/search.json @@ -375,7 +375,7 @@ "href": "contribution.html", "title": "Contributions", "section": "", - "text": "Request for Contributions\nAlthough this project does have a core team, the endeavor of tracking all these comparisons will fail without community contributions. We welcome a wide variety of contributions from correcting small typos all the way to full write-ups comparing software (languages) for a method.\nPlease contribute by submitting a pull request and our team will review it. If you are adding a page please follow one of our templates:\n\nR template\n\nInstructions for Contributions to the CAMIS repository\n\nSet up RStudio to clone the CAMIS github repo – See this guidance for more detail\nIf this is your first contribution, contact christina.e.fillmore@gsk.com and give her your github username, requesting to access the CAMIS repo for contributions\nGo into RStudio and Create a branch –Within RStudio click the branch button (on the git tab top right). Within the box that comes up ensure you are on the “remote=origin” and “Sync branch with remote” is checked. You can name the branch something to do with the amends you intend to make.\nEdit and /or add files within the CAMIS directories. If you are adding SAS guidance store under sas folder, R guidance store under r folder, for “SAS vs R” comparison store under comp. Follow the naming convention of the files already stored in those folders.\nWithin R studio - Commit each change or new file added, and push to the repo from within R studio.\nGo into github and do a pull request to sync your branch back to the origin. See create a pull request for more detail. Note that your change will need a reviewer, so please add DrLynTaylor and statasaurus as reviewers.\nOnce your change is approved, and merged into the origin, the branch will be deleted and you will need to create a new branch to add further contributions. NOTE: you can make the new branch called the same as the old one if you wish but ensure you select to overwrite the previous one." + "text": "Request for Contributions\nAlthough this project does have a core team, the endeavor of tracking all these comparisons will fail without community contributions. We welcome a wide variety of contributions from correcting small typos all the way to full write-ups comparing software (languages) for a method.\nPlease contribute by submitting a pull request and our team will review it. If you are adding a page please follow one of our templates:\n\nR template\n\nInstructions for Contributions to the CAMIS repository\nThe following instructions assume you have not done a contribution in the past. If you have contributed in the past skip down to step 5\n\nYou will need to get git, github, and RStudio setup to talk to each other. To do this you will need to have a github account and git installed on your computer. To connect your computer to github, we tend to recommend using a PAT because it is bit easier than SSH. We have a script that can help you set that up, found here. For more information Jenny Bryan has a great bookdown explaining how to get setup, alternatively see the following link for a short guidance.\nNow with RStudio all setup, you will need to “fork” the repository, which basically mean you want to make a copy of this repository that you own, so it will be under your github profile. This will allow you to make changes, without needing direct permission. To do this you will need to go into github, into the CAMIS repo, and click “fork”. This will give you some options of how you want to fork the repo, honestly you can just keep the defaults and then click “Create fork”\n\nOnce you’ve created a copy of this repository, you’ll need to clone it from GitHub to your computer. Click the “code” button to do this. The method you’ll use, either “HTTPS” or “SSH”, depends on how you’ve connected your computer to GitHub. If you’ve set up using a PAT, select the “HTTPS” tab. If you’ve used “SSH”, then choose that tab. Either way, you will need to copy the location in the box.\n\nIn RStudio, you will need to create a new project and select “Version Control” in the project wizard. Then you will select “Git” and finally paste the location copied from github into the URL box. Finally hit “Create Project” and you should be good to go!\n\nGo into RStudio and Create a branch – Give you are working from your own fork, this step it is a bit optional. It is up to you if you want to make a separate branch or not. But, it is generally considered good practice, especially if you are planning on contributing regularly. To do this from RStudio click the branch button (on the git tab top right). Within the box that comes up ensure you are on the “remote=origin” and “Sync branch with remote” is checked. You can name the branch something to do with the amends you intend to make.\nEdit and /or add files within the CAMIS directories. If you are adding SAS guidance store under sas folder, R guidance store under r folder, for “SAS vs R” comparison store under comp. Follow the naming convention of the files already stored in those folders.\nWithin R studio - Commit each change or new file added, and push to the repo from within R studio. Once you have completed the change you want to make, it is time for a pull request. Before we start though, it is good to check that your branch on github contains all the update you have done. If not you may need to push from Rstudio before moving onto the pull request.\n\nPull request in github - Back on your fork in github you will see that your repo is now ahead of the main CAMIS repository. The first thing you want to do is make sure there aren’t any conflict that have arisen with the main repository, so you need to click ‘Sync fork’.\n\nIf that is all good then you can create a pull request by clicking on ‘Contribute’ and then ‘Open pull request’. This brings you to a page where you can explain your pull request if you like or you can just confirm you would like to go through with this pull request. The final step is to add a reviewer, please add DrLynTaylor and statasaurus. For more details about making pull requests see create a pull request.\nOnce your change is approved, and merged into the origin, you will be able to see your changes on CAMIS. If you have made a branch in your fork the branch will be deleted and you will need to create a new branch to add further contributions. NOTE: you can make the new branch called the same as the old one if you wish but ensure you select to overwrite the previous one." }, { "objectID": "about.html", diff --git a/templates/R_template.html b/templates/R_template.html index 96b3c4f5..8ed8504e 100644 --- a/templates/R_template.html +++ b/templates/R_template.html @@ -107,6 +107,21 @@
    +
    + + +