Add the information for postcards

lcolladotor · Jul 5, 2023 · c544b4c · c544b4c
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diff --git a/08_recount3_intro.R b/08_recount3_intro.R
@@ -1,9 +1,9 @@
-## ----'start', message=FALSE------------------------------------------
+## ----'start', message=FALSE----
 ## Load recount3 R package
 library("recount3")
 
 
-## ----'quick_example'-------------------------------------------------
+## ----'quick_example'--------
 ## Lets download all the available projects
 human_projects <- available_projects()
 
@@ -23,7 +23,7 @@ rse_gene_SRP009615
 lobstr::obj_size(rse_gene_SRP009615)
 
 
-## ----"interactive_display", eval = FALSE-----------------------------
+## ----"interactive_display", eval = FALSE----
 ## ## Explore available human projects interactively
 ## proj_info_interactive <- interactiveDisplayBase::display(human_projects)
 ## ## Choose only 1 row in the table, then click on "send".
@@ -34,15 +34,15 @@ lobstr::obj_size(rse_gene_SRP009615)
 ## rse_gene_interactive <- create_rse(proj_info_interactive)
 
 
-## ----"tranform_counts"-----------------------------------------------
+## ----"tranform_counts"------
 ## We'll compute read counts, which is what most downstream software
 ## uses.
 ## For other types of transformations such as RPKM and TPM, use
 ## transform_counts().
 assay(rse_gene_SRP009615, "counts") <- compute_read_counts(rse_gene_SRP009615)
 
 
-## ----"expand_attributes"---------------------------------------------
+## ----"expand_attributes"----
 ## Lets make it easier to use the information available for this study
 ## that was provided by the original authors of the study.
 rse_gene_SRP009615 <- expand_sra_attributes(rse_gene_SRP009615)

diff --git a/15_misc.R b/15_misc.R
@@ -1 +1,19 @@
+## ----postcards_proj, eval = FALSE----
+## ## Create an RStudio project first with this particular name
+## usethis::create_project("YourGitHubUsername.github.io")
+## 
+## ## Configure Git and GitHub
+## ## If you don't have git, check "Happy Git and GitHub for the useR" available
+## ## at https://happygitwithr.com/
+## usethis::use_git()
+## usethis::use_github()
+
+
+## ----postcards_create, eval = FALSE----
+## ## Choose only one of these options, whichever you liked the most
+## postcards::create_postcard(template = "jolla")
+## postcards::create_postcard(template = "jolla-blue")
+## postcards::create_postcard(template = "trestles")
+## postcards::create_postcard(template = "onofre")
+## postcards::create_postcard(template = "solana")
 
diff --git a/15_misc.Rmd b/15_misc.Rmd
@@ -1,10 +1,59 @@
-# TBD
+# Miscellaneous
 
 Instructor: Leo
 
-## Options
+## postcards
+
+<iframe class="speakerdeck-iframe" frameborder="0" src="https://speakerdeck.com/player/b7d3bbee06d14a548a664e76ea9110d8" title="Updating spatialLIBD: from SingleCellExperiment to VisiumExperiment classes" allowfullscreen="true" mozallowfullscreen="true" webkitallowfullscreen="true" style="border: 0px; background: padding-box padding-box rgba(0, 0, 0, 0.1); margin: 0px; padding: 0px; border-radius: 6px; box-shadow: rgba(0, 0, 0, 0.2) 0px 5px 40px; width: 560px; height: 420px;" data-ratio="1.3333333333333333"></iframe>
+
+<iframe width="560" height="315" src="https://www.youtube.com/embed/Q6eRD8Nyxfk" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
+
+<iframe width="560" height="315" src="https://www.youtube.com/embed/0S_tRne5UNk" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
+
+_The above video is in Spanish._
+
+* Similar to https://pages.github.com/
+* `postcards` has 5 templates https://github.com/seankross/postcards
+* Your website should ideally say something about you, your interests, your projects, and how to contact you. Here are some examples with their source code:
+  - https://amy-peterson.github.io/ + https://github.com/amy-peterson/amy-peterson.github.com
+  - http://jtleek.com/ + https://github.com/jtleek/jtleek.github.io
+  - http://aejaffe.com/ + https://github.com/andrewejaffe/andrewejaffe.github.io
+  - https://hadley.nz/ + https://github.com/hadley/hadley.github.com
+  - https://emarquezz.github.io/ + https://github.com/emarquezz/emarquezz.github.io
+  - https://bpardo99.github.io/ + https://github.com/bpardo99/bpardo99.github.io
+  - https://daianna21.github.io/ + https://github.com/daianna21/daianna21.github.io
+  - https://reneegf.github.io/ + https://github.com/reneegf/reneegf.github.io
+
+
+```{r postcards_proj, eval = FALSE}
+## Create an RStudio project first with this particular name
+usethis::create_project("YourGitHubUsername.github.io")
+
+## Configure Git and GitHub
+## If you don't have git, check "Happy Git and GitHub for the useR" available
+## at https://happygitwithr.com/
+usethis::use_git()
+usethis::use_github()
+```
+
+Create your website template using `postcards` by choosing one of the options below. This will create an `index.Rmd` file.
+
+```{r postcards_create, eval = FALSE}
+## Choose only one of these options, whichever you liked the most
+postcards::create_postcard(template = "jolla")
+postcards::create_postcard(template = "jolla-blue")
+postcards::create_postcard(template = "trestles")
+postcards::create_postcard(template = "onofre")
+postcards::create_postcard(template = "solana")
+```
+
+* Fill out your information using `Markdown` syntax. For example: https://github.com/andrewejaffe/andrewejaffe.github.io/blob/master/index.Rmd#L17-L31.
+* Add links to your own profiles like at https://github.com/andrewejaffe/andrewejaffe.github.io/blob/master/index.Rmd#L7-L12
+* Click the `knit` blue button on RStudio. This is the same as running `rmarkdown::render("index.Rmd")` on the console. This will create the `index.html` file.
+* Make a `git commit` to save your new files including `index.html` and then `git push` to upload your files to GitHub.
+* You will soon have a publicly website available at https://YourGitHubUsername.github.io/
+* Feel free to keep editing your website. Remember to `knit`, then `git add` + `git commit` the new versions of your files, then `git push` to upload them to GitHub.
+* Share your website and source code through the [`random`](https://cshldata-2023.slack.com/archives/C058SB8TB1C) Slack channel.
+* (optional) Announce your new website using the `#rstats` hasthag and/or the author of `postcards` https://twitter.com/seankross.
 
-These are the options I've heard interest in so far:
 
-* `postcards` for making your own personal website
-  - Requires a `git` and `GitHub` setup