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The Wire
#Trick
Wire posts tagged with 'Trick'
Jit
@jit.aber
Thread
By
Jit
2637 days ago
while (!eof(IN)) { }
#Perl
#Trick
Jit
@jit.aber
Thread
By
Jit
2656 days ago
Delete size zero files from a folder: find . -size 0 -delete
#Linux
#Trick
Jit
@jit.aber
Thread
By
Jit
2846 days ago
To know about your OS: lsb_release -ra
#Trick
#OS
#Linux
Jit
@jit.aber
Thread
By
Jit
2861 days ago
Check if BAM file is sorted or not use: for F in `find . -name "*.bam"`; do echo $F; samtools index ${F} ; done
#Sort
#BAM
#Trick
Jit
@jit.aber
Thread
By
Jit
2964 days ago
Perl common flags
http:/
/
perldoc.perl.org/
functions/
-X.html
# Perl
#Flags
#Trick
Jit
@jit.aber
Thread
By
Jit
2967 days ago
Print all text after a matching string perl -ne "print unless 1 .. m(String)"
#Perl
#OneLiner
#String
#Perl
#Trick
Neelam Jha
@neelam
Thread
By
Neelam Jha
2971 days ago
Delete space from FASTA header: perl -pe 's/>\S+\K.+//' < file.fasta > new_file.fasta
#PerlOneLiner
#Trick
#Perl
#Space
#Fasta
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
3008 days ago
To uninstall a perl module $ cpanm --uninstall <Module::Name>
#Perl
#Trick
#Uninstall
#Module
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
3153 days ago
Remove the fasta description and just keep the identifier. perl -p -i -e 's/>(.+?) .+/>$1/g' sample1.fa
#Perl
#Oneliner
#Trick
#Tips
#Fasta
#Identifier
#Remove
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
3153 days ago
Extract sequences by their ID from a fasta file. perl -ne 'if(/^>(\S+)/){$c=$i{$1}}$c?print:chomp;$i{$_}=1 if
@ARGV
' ids.txt sample1.fa
#Extract
#Sequences
#IDs
#Fasta
#Perl
#Trick
#Oneliner
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
3155 days ago
Search and replace the string 'this' with the string 'that' in the file filename. perl -p -i -e 's/this/that/g' filename
#Perl
#Trick
#PerlOneLiner
#Tipsoftheday
#Replace
#FindandReplace
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
3155 days ago
Display top 10 Mrmory resource intensive processes in order $ line=$(ps aux | head -n 1) && echo $line; ps aux | sort -nrk 5 | head
#Display
#Top10
#Memory
#Processes
#Linux
#Trick
Rahul Nayak
@rahul
Thread
By
Rahul Nayak
3180 days ago
Sort FASTA sequence by length: cat f1.fasta| awk '{if($0 ~ /^>/){printf "%st", $0}else{print length($0)"t"$0}}'| sort -k2n,2| awk '{print $1"n"$3}' > sequence.fasta
#Sort
#Fasta
#Trick
#Onliner