shell-genomics

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clarajegousse

Grep output doesn't match what's in the lesson in a way that breaks the example

7

I'm trying to run this lesson with the data files downloaded from FigShare. In the [Redirection](https://datacarpentry.org/shell-genomics/04-redirection/index.html), lesson, the output of ``` grep -B1 -A2 NNNNNNNNNN SRR098026.fastq > bad_reads.txt wc -l...

JCSzamosi

Adding in missing '$' symbol for the prompt

sstevens2

This callout box was not rendering properly. Think because it was a level one heading. This commit makes it a level 2 heading instead.

sstevens2

I adjusted the hyperlink text to match the title of the webpage of the link --- Thanks for contributing! If this contribution is for instructor training, please send an email...

AliciaHadingham

In the "Command History" section where some useful shortcuts are introduced, I think it can be helpful to add a sentence explaining what the Ctrl+R shortcut does. For example, it...

Elahep

Episode 6. Addition of a "cut" command to remove line numbers in history

2

In the section for documenting your work, the following code is run ``` history | tail -n 7 ``` The output is 651 mkdir dc_workshop 652 mkdir dc_workshop/docs 653 mkdir...

ckigenk

Inconsistent usage of PuTTY/Git Bash (for Windows users)

2

I've noticed there are some inconsistencies in the instructions for Windows users across the course around the usage of GitBash/PuTTY. On the setup page, Git Bash is now the first...

ac1513

shell-genomics/05-writing-scripts -incorrect output displayed for $ ls -l bad-reads-script.sh

1

The output displayed is incorrect as seen here; First, let's look at the current permissions. $ ls -l bad-reads-script.sh {: .bash} -rw-rw-r-- 1 dcuser dcuser 0 Oct 25 21:46 bad-reads-script.sh...

Parcelli

Added the definition of `PS1` which has not been defined under the 'Navigating your file system' section in lesson 1: Introducing the Shell

eKariuki-sleepy