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Some minor clean up (style/spacing, remove unneeded chunk, etc) #274

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merged 4 commits into from
Oct 2, 2024
Merged

Some minor clean up (style/spacing, remove unneeded chunk, etc) #274

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5ca8fe5
Change html img tag to markdown
naupaka Apr 10, 2024
9d6ec6f
Fix some stylistic spacing issues in ep 1
naupaka Apr 10, 2024
24f093d
Merge branch 'main' of github.com:datacarpentry/genomics-r-intro
naupaka Apr 10, 2024
0899b57
Remove empty chunk
naupaka Apr 10, 2024
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13 changes: 5 additions & 8 deletions episodes/01-r-basics.Rmd
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Expand Up @@ -23,9 +23,6 @@

::::::::::::::::::::::::::::::::::::::::::::::::::

```{r, include=FALSE}
```

## "The fantastic world of R awaits you" OR "Nobody wants to learn how to use R"

Before we begin this lesson, we want you to be clear on the goal of the workshop
Expand Down Expand Up @@ -219,7 +216,7 @@
about how to assign the name to "human\_ chr\_number" when the object name we
want is "human\_chr\_number".

<img src="fig/rstudio_script_warning.png" alt="rstudio script warning" style="width: 600px;"/>
![RStudio script warning]("fig/rstudio_script_warning.png")

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::::::::::::::::::::::::::::::::::::::::::::::::::

Expand Down Expand Up @@ -429,7 +426,7 @@
These can be used with literal numbers:

```{r, purl=FALSE}
(1 + (5 ** 0.5))/2
(1 + (5 ** 0.5)) / 2
```

and importantly, can be used on any object that evaluates to (i.e. interpreted
Expand Down Expand Up @@ -459,7 +456,7 @@
## Solution

```{r, purl=FALSE}
round((1 + sqrt(5))/2, digits = 3)
round((1 + sqrt(5)) / 2, digits = 3)
```

Notice that you can place one function inside of another.
Expand Down Expand Up @@ -554,7 +551,7 @@
```{r, purl=FALSE}
# get the 1st through the 3rd value, and 4th value in the snp vector
# yes, this is a little silly in a vector of only 4 values.
snps[c(1:3,4)]
snps[c(1:3, 4)]
```

## Adding to, removing, or replacing values in existing vectors
Expand Down Expand Up @@ -591,7 +588,7 @@
We can also explicitly rename or add a value to our index using double bracket notation:

```{r, purl=FALSE}
snp_genes[6]<- "APOA5"
snp_genes[6] <- "APOA5"
snp_genes
```

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