tags:
  - bash
type:
  - course
subject:
  - bioinformatics
Year: 2023
class: m2ggb
yaml

BioInfo - Exercices Bash

Preparation

cd
cp /home/tludwig/s.omalleysbar.txt .
bash

use cut

cat s.omalleysbar.txt | ... | head -30
bash

Solution

Code

cat s.omalleysbar.txt | cut -d' ' -f1 | head -30
bash

use cut, sort, uniq

cat s.omalleysbar.txt | ... | head -20
bash

Solution

Code

cat s.omalleysbar.txt | cut -d' ' -f1 | sort | uniq -c | sort -n | tail -30
bash

use cut, rev

cat s.omalleysbar.txt | ... | head -20
bash

Solution

Code

cat s.omalleysbar.txt | rev | cut -d' ' -f1 | rev | head -30
bash

use grep -w

cat s.omalleysbar.txt | ... 
bash

Solution

Code

cat s.omalleysbar.txt | grep -w "as" | head -30
bash

use grep, wc

cat s.omalleysbar.txt | ... 
bash

Solution

Code

cat s.omalleysbar.txt | grep -o -w "as" | wc -l
bash

use tr, sort

cat s.omalleysbar.txt | tr '[:upper:]' '[:lower:]' | ... | head -30

Solution

use tr, sort, uniq

cat s.omalleysbar.txt | tr '[:upper:]' '[:lower:]' | ... | head -30
bash

Solution

Code

cat s.omalleysbar.txt | tr '[:upper:]' '[:lower:]' | tr " " "\n"| sort | uniq -c | sort -n | tail -30
bash

use cut, diff, grep

cat s.omalleysbar.txt | ... 
...
bash

Solution

Code

cat s.omalleysbar.txt | cut -c-45 > max45
diff s.omalleysbar.txt max45 | grep "^<" | cut -c3-
bash