The explicit goal of this tutorial is to provide you with some tricks and tools and to make your unix life happier.
See https://github.com/stephenturner/oneliners for a bunch of examples.
Profile customization and aliases: These are 'shortcuts' for make doing stuff more efficient.
nano ~/.profile alias c='clear' alias gh='history | grep' alias ll='logout' alias l='ls -lth' alias mv='mv -i' alias cp='cp -i' alias tn="tmux new -s" alias ta="tmux attach -t" alias tl="tmux ls" alias tk="tmux kill-session -t"
DOWNLOAD SOME DATA
mkdir /home/ubuntu/data && cd /home/ubuntu/data curl -LO https://s3.amazonaws.com/reference_assemblies/Oophaga/transcriptome/Oophaga_pumilio.1.0.0.fasta curl -L https://github.com/ngs-docs/angus/blob/2016/_static/quantification.tgz?raw=true > quantification.tgz tar -zxf *gz
Find a file
cd $HOME find / -name quant.sf find / -type f -size +10M 2> /dev/null
sed
less Oophaga_pumilio.1.0.0.fasta sed 's/_/+++bananas+++/g' Oophaga_pumilio.1.0.0.fasta | grep ^'>' | head sed -i 's/_/+++bananas+++/g' Oophaga_pumilio.1.0.0.fasta
Number fasta def line
awk '/^>/{print ">" ++i; next}{print}' < Oophaga_pumilio.1.0.0.fasta > renamed.fasta
awk
file=$(find . -name quant.sf | head -1)
awk '{print $1 "\t" $3}' $file | head
awk '$1 == "FBtr0070078"' $file
Random Stuff
cd -