One-Liners - General

#Count lines in multiple files and display lines per file
  grep -c filenames

#Mutation spectrum (base pair change) of SNVs in a BED file
	cut -f4,5 filename | sort | uniq -c	

#Find difference between 2 files
	awk 'FNR==NR{f[$1];next}(!($1 in f)) ' file1 file2

#Find pattern and display n lines above pattern (n=10)
	grep "pattern" filename -B 10 

#Find pattern and display n lines below pattern (n=10)
	grep "pattern" filename -A 10 

#Combine files
	cat file1 file2 file3 > newfile

#Replace ^M with line break in VI text editor
	%s/^M/\r/g

#Replace space in the beginning of line VI text editor
	%s/^ \+//

#Compare file1 and file2; suppress lines unique to FILE1 
	comm -1 file1 file2 > file3

#Compare file1 and file2, suppress lines unique to FILE2
	comm -2 file1 file2 > file3

#Compare file1 and file2, suppress lines that appear in both files
	comm -3 file1 file2 > file3

#Extract last field per line
	awk '{ print $NF }' filename
	
#Mutation spectrum (base Pair change) of SNVs in a BED file
	cut -f4,5 filename | sort | uniq -c

#Extract the Nth string in a line
	cut -c Nth	
	
#Unzip multiple tar files
	for file in *.tar.gz; do tar -zxf $file; done

#Extract the 8th line of single file
	sed '8q;d' filename	

#Extract the 8th line of multiple files	
	awk 'FNR == 8' *filenames
	
#Find 2 patterns in the same file
	cat filename | grep -e "pattern1"  -e "pattern2"
	
#Append output to beginning of file
	cat <(command) filename >tmp && mv tmp filename