UQRUG 7
meeting
2020-07-27: UQRUG 7
On Zoom, 3-5 pm: https://uqz.zoom.us/j/91844551770
Attendees and problems
- Stéphane (Library): anyone with experience with Tidyverse + quosure / quasiquotation? I want to use strings in one column as object names in a function.
- Ruth (HMNS): I don’t have any specific issues this week. I am happy to listen and explore new packages.
- Chantelle Derez (Biological Science): I don’t have any specific issues, just popping in to learn. Current favourite package is Thermimage and colour palette ‘rainbow’ for analysing thermal images. :rainbow:
- Paula Andrea M (CAI) I’m here to help. Also I would like to invite you to the Rladies Brisbane events. https://www.meetup.com/rladies-brisbane/events/272075776 The topic of next month is R in Biology.
- Fathin (SAFS) No issue to date.
- Damber (I want to learn plotting glmm prediction) - shared on chat.uq.edu as well.
- Candice: RNAseq in R.
- Found resources:
- https://osca.bioconductor.org
- https://bioconductor.riken.jp/packages/3.8/workflows/html/simpleSingleCell.html
- Greg (Chemical Engineering) Late but here to help. Currently grappling with some nasty XML at the moment that I want to parse efficiently. Writing my PhD thesis in RMarkdown.
Favourite packages
- tmap: https://mtennekes.github.io/tmap/
- stylr: https://github.com/r-lib/styler
- raster: https://rspatial.org/raster/pkg/index.html
- ggplot2: https://ggplot2.tidyverse.org/
- ggpubr: https://rpkgs.datanovia.com/ggpubr/index.html
- Thermimage: https://cran.r-project.org/web/packages/Thermimage/index.html
- GGIR: https://cran.r-project.org/web/packages/GGIR/index.html
From today’s questions
- Reading XML data into R
- https://subscription.packtpub.com/book/big_data_and_business_intelligence/9781783989065/1/ch01lvl1sec11/reading-xml-data
- https://stackoverflow.com/questions/40977885/extracting-nodes-by-name
- Greg also this code worked well for missing nodes, but not for reapeated names. Have a try ``` library(XML) library(methods)
xmldata <- xmlToDataFrame(“data/plant_catalog_incomplete.xml”) View(xmldata) ``` * For Single cell analysis * https://osca.bioconductor.org/introduction.html * https://bioconductor.riken.jp/packages/3.8/workflows/html/simpleSingleCell.html * For plotting gml data * merTools https://rdrr.io/cran/merTools/man/plotREsim.html * https://easystats.github.io/see/articles/performance.html * SAS to R migration * https://www.r-bloggers.com/sas-to-r-migration/ * https://github.com/asnr/sas-to-r