Homepage
Open in app
Sign inGet started

#!/ngs/sh

Bioinformatics from the Command Line

A small introduction to Bash scripting (Part 1)

A small introduction to Bash scripting (Part 1)

Bash scripting basics for biologists turning bioinformaticians.
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 2, 2018

For loops (Bash scripting, Part 2)

A bioinformatic example of a for loop
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 2, 2018

If, then. Condition checking for Bash scripts (Part 3)

The idea to check if some condition is true before executing some commands is very simple and useful.
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 5, 2018

Bash scripting safety net (Part 4)

Best practice to avoid common errors in Bash scripts, preventing execution if errors occur: “set -euo pipefail”
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 6, 2018

Downloading NGS data sets from the command line

Short reads data sets can be automatically downloaded from the Linux terminal
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 14, 2018

Testing regular expressions in a Bash script

I noticed that several shell script would be simpler and more powerful if they adopted some pattern matching, but this technique so widely…
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 2, 2018

Bash script getting parameters from the users (Part 5)

An introduction to arguments passed from the user to our shell scripts.
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 9, 2018
A short introduction to Git and GitHub

A short introduction to Git and GitHub

The minimum workflow for keeping file revisions under control
Go to the profile of Andrea Telatin
Andrea Telatin
Jun 27, 2018
Coverage analysis from the command line

Coverage analysis from the command line

Concepts and simple tools to evaluate the sequence coverage of a reference sequence.
Go to the profile of Andrea Telatin
Andrea Telatin
Mar 13, 2018
About #!/ngs/shLatest StoriesArchiveAbout MediumTermsPrivacy