sisbid / data-wrangling Goto Github PK

I feel like we might want to mention this somewhere...

maybe in the summarize lecture? an example kinda like with the last lab question?

or do we want a module?

some students needed this

Lab question 4 appears to be missing part of the instructions

• update the topics covered to remove genomics and move github to the bottom
• add more about jargon? rows, columns, function, and package?
• remove some slides that make me nervous haha

could be nice to do this - maybe recaps

Lab 1

• gah sorry I guess I messed this up by showing it programatically too early (somehow I thought I heard you say it but I don't think so).. maybe we should add directions to the lab about specifically using the GUI and going to file --> import dataset ect. (or have them do both if we add a tad more about how to do it programmatically in R in the lecture? - maybe even just copy and pasting from R when using the GUI?

Then part2 could then focus on using paths special imports and output?

Maybe for part one just use the urls if we did that

South_West <- ufo_clean %>% filter(state %in% c("tx", "nm", "ut")) %>%
  mutate(recode(state, "Texas" = "tx",
                        "New_Mexico" = "nm",
                        "Utah" = "ut"))
South_West

Need to reverse new and old names

people struggled with authentication

question 2 missing word of - number of boardings

Easier than ifelse for nas

https://dplyr.tidyverse.org/reference/na_if.html

make more general, less Bioc/SRA

CONFUSING

Appears to be a bug here. @carriewright11 you mentioned a problem others might be having - could we link to it here?

people often ask about this... maybe we should add an example

seems to mostly be about naniar.. but now that will come later... so probably want to practice the data io stuff more?

Split up some of Jeff's google slides into smaller pieces

remove parameterized reports

reshaping lab says to use pivot_wider instead of pivot_longer for Q2. For cleaning lab add hint and explanation about str_detect vs str_subset

what if we made a single cheatsheet for the class? (or we could make multiple cheatsheets.

This is just an icing on the cake idea :P

maybe we would want to add this?

add alternative:

long %>% mutate(
  var = str_replace(var, "Board", "_Board"),
  var = str_replace(var, "Alight", "_Alight"),
  var = str_replace(var, "Average", "_Average") 
)

Need more details on this

question number 6 in the key and lab says 5

equal sign for assignment on one of the first slides

• Make a release for last year material
• Zoom link
• Edit welcome_email.txt - to be used as Slack message
• Update index for software and any schedule changes
• Update lecture_notes/setup
• Send out welcome message with zoom link
• Go through the index page and make sure the links are up to date (Ava)
• Add disclaimer to the welcome message that materials may be updated between now and the first class session

last question to should be two in comment

we describe getting packages on anvil... do we want to?

In the subsetting lab part 1:

mpg %>% filter(displ > 4 & drv == 4)
mpg %>% filter(displ > 4 & drv == "4")

Both of these yield the same results. Might be worth some explanation that as numbers can be quoted or not, regardless of the column data class

http://sisbid.github.io/Module1/

Material covered in Day 2 are incorrectly labeled as Day 1

https://gitprint.com/SISBID/Module1/blob/gh-pages/lecture_notes/Bioconductor_intro.md
(starting on page 26)

The printed file output the entire dataset into the document. Perhaps there is a way to set the "eval" to FALSE for markdown or shorten the output?

In getting_started.md, the link for RStudio online learning extra materials (http://www.rstudio.com/resources/training/online-learning/) is broken. I think you're looking for either https://education.rstudio.com/ or https://education.rstudio.com/learn/

This doesn't appear to list the helpers. I think an alternative is needed here.

accidentally have something about all the packages apparently:

The following file is not found in the "This file" link (https://jhudatascience.org/intro_to_r/resources/all_the_packages.txt) of the R and RStudio Installation html page.

Maybe this should happen after the functional programming module, where lists are introduced?

Also can maybe update to show how you could use purrr instead of the for loop

I put the bike data in the missing data lecture... don't know if we introduce this package earlier or not

maybe add this to joining, merging material?

at least 2 and no larger than g should be 6
should say use iris_lab data at the step 1