Summary 1. How to easily convert a string of character to appear one character per line> Either of: echo “abcdefg” | fold -w1 echo “abcdefg” | grep -o . 2. How to convert amino acid …
bash
Reformat every other line with paste
Sometimes a very simple command can accomplish amazing tasks. Recently I had a list with alternating entries on every other line with about 200 lines, and lots of uneven text. But I wanted to …
PowerShell – an opinionated primer
PowerShell One day I discovered that there was a Windows App called “PowerShell” while searching on my Windows 10 installation. I did not pay much attention to it even if I stumbled upon it a …
csvkit command-line spreadsheet can convert and compute multiple Excel files
Summary csvkit is a suite of command-line tools for converting to and working with CSV, the king of tabular file formats. (csvkitis written in python.) csvkit Documentation: csvkit.rtfd.org csvkit Repository: github.com/wireservice/csvkit A good docker container …
Data Analysis Workshops Fall 2020
SUMMARY: Check calendar for Free “R” and “Python” workshops (Steenbock Library.) “Introduction to R with RStudio,” “Data Wrangling in R” (SSCC – Social Science Computing Cooperative.) “Automating Tasks with the Unix Shell,” “Data Management with SQL,” “Introduction to Docker” (Software Carpentry through UW-Madison Data Science (fees apply).)
bioinformatics tutorials
June 26, 2020. I have added a new entry under the “Tutorials” menu for “bioinformatics” to provide a place for tutorials that are more than just about one subject. “bioinformatics is the science of …
A great Unix tutorial suitable for beginners
…provides a wonderfully well done, easy to understand set of small tutorials, with exercises, each with an accompanying video that should make it easier for beginners that want to learn Unix command line / bash…. To make is faster to navigate the lessons and videos I have combined both into a simple table…
Finding alternate software
A couple years ago I wrote a short note on another blog (DNA.today – link below) about a web site that can be quite useful: it provides the name of alternate software. The site is: alternativeto.net For example, …
Survival command line
The built-in Terminal in MacOS and Linux and in Windows with added software provides access to the core of the computer. They are simply a software version (an emulation) of what used to be a hardware …
Bioinformatics – which computer language should I learn first?
In the past years I have focused on what seemed to be the most useful bioinformatics tools for biologists that need to analyze data with software that does not have a graphical interface. The final …