BOL: Wire posts tagged with 'Trick'

Wire post by Jit

Jit — Mon, 06 Feb 2017 05:14:06 -0600

while (!eof(IN)) { } #Perl #Trick

Wire post by Jit

Jit — Wed, 18 Jan 2017 03:59:18 -0600

Delete size zero files from a folder: find . -size 0 -delete #Linux #Trick

Wire post by Jit

Jit — Tue, 12 Jul 2016 05:07:55 -0500

To know about your OS: lsb_release -ra #Trick #OS #Linux

Wire post by Jit

Jit — Mon, 27 Jun 2016 08:39:50 -0500

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

Wire post by Jit

Jit — Wed, 16 Mar 2016 11:07:30 -0500

Perl common flags http://perldoc.perl.org/functions/-X.html # Perl #Flags #Trick

Wire post by Jit

Jit — Sun, 13 Mar 2016 13:59:21 -0500

Print all text after a matching string perl -ne "print unless 1 .. m(String)" #Perl #OneLiner #String #Perl #Trick

Wire post by Neel

Neel — Wed, 09 Mar 2016 08:23:46 -0600

Delete space from FASTA header: perl -pe 's/>\S+\K.+//' < file.fasta > new_file.fasta #PerlOneLiner #Trick #Perl #Space #Fasta

Wire post by Rahul Nayak

Rahul Nayak — Mon, 01 Feb 2016 05:15:33 -0600

To uninstall a perl module $ cpanm --uninstall #Perl #Trick #Uninstall #Module

Wire post by Rahul Nayak

Rahul Nayak — Wed, 09 Sep 2015 16:05:55 -0500

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

Wire post by Rahul Nayak

Rahul Nayak — Wed, 09 Sep 2015 16:01:53 -0500

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

Wire post by Rahul Nayak

Rahul Nayak — Mon, 07 Sep 2015 12:14:57 -0500

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

Wire post by Rahul Nayak

Rahul Nayak — Mon, 07 Sep 2015 12:11:28 -0500

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

Wire post by Rahul Nayak

Rahul Nayak — Thu, 13 Aug 2015 00:36:31 -0500

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