datacarpentry/genomics-r-intro

Issues

• Exercise for pipe and filter has a typo in question (“shwoing”). Filtered columns should be included in select so learners can confirm result.

  #164 opened 2 years ago
  0

• Fix broken screenshot of bioconductor homepage

  #163 opened 2 years ago
  1

• The challenge “Select all the mutations that occurred between the positions 1e6 (one million) and 2e6 (included) that are not indels and have QUAL greater than 200.” needs to be worded more clearly.

  #162 opened 2 years ago
  0

• When demonstrating the OR operator, change the code chunk to use two numerical variables. Is currently filter(variants, sample_id == "SRR2584863", (INDEL | QUAL >= 100)) and INDEL is logical.

  #160 opened 2 years ago
  0

• Note in exercise solution for creating a table that ‘contains’ is not case sensitive.

  #158 opened 2 years ago
  0

• Change the exercise on creating a table so that the solution is a series of steps rather than a single command. Also may need to make hint more explicit, as we haven’t taught ‘contains’ but information about it appears in the help file for ‘ends_with’.

  #157 opened 2 years ago
  1

• Episode 02 - R Basics

  #154 opened 9 months ago
  0

• We used read.csv() to read in the variants data, but the lesson seems to have used read_csv in the background. This is affecting the output for example on the `select` calls, which on the lesson page is showing tibble output but for learners/instructors is printing the full output to screen.

  #150 opened 2 years ago
  1

• Add callout explaining why ?read.csv opens read.table help file

  #149 opened 8 months ago
  1

• Move introduction to the VCF file from the first episode to later when it is relevant. It is too much information for learners at the start of the workshop.

  #148 opened 2 years ago
  1

• Where is bioconductor vcfR used in the lesson?

  #147 opened 9 months ago
  2

• vcf.csv file for Data Analysis and Visualization

  #146 opened 9 months ago
  2

• Reuse Proj folder from shell/datawrangling

  #145 opened 2 years ago
  1

• Remove setwd() in favor of Rproj

  #144 opened 8 months ago
  1

• To do list from beta pilot (2022-05-25-aucenter-online)

  #142 opened 2 years ago
  2

• latex not rendering

  #140 opened a year ago
  1

• Add introductory/background episode for a 1-day workshop version of the R lessons

  #123 opened 2 years ago
  3

• Data Visualization with ggplot2 objective: titles, subtitles, and fonts

  #122 opened 2 years ago
  1

• Definition of "$" not addressed in episode 3

  #120 opened 7 months ago
  1

• Moving into the new lesson format

  #119 opened a year ago
  2

• FYI: Related content available in another incubator lesson

  #117 opened 3 years ago
  1

• Why using the cloud?

  #116 opened a year ago
  1

• 01-introduction: typo

  #115 opened a year ago
  0

• 05-data-visualization: i) suggestion of a tool for "melting" a dataframe to the 'long' format; ii) citing more examples of geom_

  #114 opened 2 years ago
  2

• Problem in build of dataframes episode

  #110 opened 3 years ago
  1

• Add example on saving ggplots

  #107 opened 2 years ago
  2

• 05 Adding information of the context of ggplot2

  #106 opened a year ago
  2

• Why cloud R?

  #105 opened a year ago
  2

• key points are missing in Data Visualization with ggplot2 episode

  #104 opened 2 years ago
  2

• adding information about different data import functions explicitly by either base r or some package

  #100 opened 3 years ago
  1

• Rename object 'a' to 'first_value'

  #98 opened 9 months ago
  0

• Lesson Contribution: Setup Information

  #97 opened 9 months ago
  6

• Typo in "Introducing Factors" due to R 4.0.0

  #94 opened 3 years ago
  2

• Package load errors in website builds

  #92 opened 4 years ago
  4

• Interested in helping shape R-genomics?

  #89 opened 9 months ago
  20

• discripancy in test where .csv file is

  #86 opened 4 years ago
  1

• use read_csv instead of read.csv

  #85 opened 3 years ago
  3

• Add count into dplyr episode

  #84 opened 3 years ago
  1

• Update lesson status from alpha to beta

  #81 opened 9 months ago
  13

• RFC: Migration to R 4.0

  #78 opened 3 years ago
  3

• Typo in diagram of RStudio panel layout

  #75 opened 3 years ago
  1

• Add 'citations' and 'bibliography' subject to Producing Reports episode

  #74 opened 9 months ago
  1

• Complete a few missing pieces for Lesson "Data Visualization with ggplot2"

  #73 opened 2 years ago
  4

• lesson contribution [submitted by email]

  #70 opened a year ago
  2

• Episode 2: data frame VS list

  #68 opened 3 years ago
  1

• data frame vs tibble in 4. Aggregating and Analyzing Data with dplyr

  #66 opened 3 years ago
  3

• Episode 05 (Data Visualization): geom_jitter()

  #62 opened 9 months ago
  2

• Inconsistent use of "data frame" and "dataframe"

  #61 opened 3 years ago
  0

• Incomplete links in `CONTRIBUTING.md`

  #60 opened 5 years ago
  1

• talk about "class" rather than "mode" or "typeof"

  #55 opened 7 months ago
  3