BOL: All wire posts

Wire post by Shruti Paniwala

Shruti Paniwala — Tue, 25 Oct 2016 05:25:43 -0500

Coverage R Plot http://davetang.org/muse/2013/09/07/creating-a-coverage-plot-in-r/ #R #Plot #Genome #Image #NGS #BAM

Wire post by Jit

Jit — Tue, 11 Oct 2016 08:35:33 -0500

exfat on ubuntu $ sudo apt-get install exfat-utils exfat-fuse #exfat #ubuntu #mount

Wire post by Rahul Agarwal

Rahul Agarwal — Fri, 07 Oct 2016 09:36:04 -0500

Identify and Remove Outlier Samples!!
https://labs.genetics.ucla.edu/horvath/CoexpressionNetwork/HumanBrainTranscriptome/Identification%20and%20Removal%20of%20Outlier%20Samples%20-%20Illumina.pdf #Re

Wire post by Jit

Jit — Thu, 06 Oct 2016 05:11:30 -0500

Forest plot https://cran.r-project.org/web/packages/forestplot/vignettes/forestplot.html #R #Forest #Plot #Example #Explanation #PrettyPlot

Wire post by Rahul Agarwal

Rahul Agarwal — Thu, 06 Oct 2016 01:08:07 -0500

http://www.biorxiv.org/content/early/2016/10/05/079301 #omics #genetics#sequencing #animal

Wire post by Jit

Jit — Wed, 05 Oct 2016 08:46:15 -0500

R pretty scripts http://www.ncss.com/software/ncss/ncss-plots-and-graphs/ #R #Script #Plot #Idea #Graph

Wire post by Jit

Jit — Tue, 04 Oct 2016 14:48:31 -0500

A perl script for mapping fasta formated sequences to multiple reference sequences using one of several alignment programs. http://seq.crg.es/download/software/Miro/doc/run_Mapping.html #Perl #Script

Wire post by Abhimanyu Singh

Abhimanyu Singh — Tue, 04 Oct 2016 07:48:36 -0500

Useful perl script http://homepages.ulb.ac.be/~dgonze/SCRIPTS/scripts.html #Perl #Script #Resource

Wire post by Neel

Neel — Mon, 03 Oct 2016 13:46:38 -0500

https://github.com/gokceneraslan/awesome-deepbio #DeepLearning #Bioinformatics #DeepBio

Wire post by Jit

Jit — Fri, 23 Sep 2016 10:18:59 -0500

Split the text file with line number in Linux: wc -l abc.txt and then: split -l 60000 abc.txt #Split #Break #Line #Ubuntu #Linux #Tricks

Wire post by Abhi

Abhi — Tue, 20 Sep 2016 05:47:03 -0500

Bioinformatics trainee needed at Kalyani http://www.klyuniv.ac.in/upload/employment/AdvtBIFCentre_9.9.2016.pdf #Trainee #Kaluani

Wire post by Jit

Jit — Fri, 16 Sep 2016 05:18:53 -0500

Number of thread in Linux: echo $(( `ps axms | wc -l` - 1)) #Thread #Info #Linux

Wire post by Radha Agarkar

Radha Agarkar — Fri, 16 Sep 2016 03:00:15 -0500

Extract sequence by using Ids file (assuming one ids in a line): perl -ne 'if(/^>(\S+)/){$c=$i{$1}}$c?print:chomp;$i{$_}=1 if @ARGV' ids.file fasta.file #PerlTricks #PerlOneliner #Perl #Extract #Ids #

Wire post by Radha Agarkar

Radha Agarkar — Fri, 16 Sep 2016 02:57:36 -0500

Extract fasta sequence by Ids: perl -ne 'if(/^>(\S+)/){$c=grep{/^$1$/}qw(id1 id2)}print if $c' fasta.file #Perl #PerlOneliner #PerlTrick #Extract #Ids #Fasta

Wire post by Shruti Paniwala

Shruti Paniwala — Thu, 15 Sep 2016 11:15:56 -0500

Rename the fasta name perl -ane 'if(/\>/){$a++; @foo = split /\s+/;$_ = join '_', @foo; print "$_\n"}else{print;}' your.fasta > new.fa #PerlTrick #PerlOneliner #Perl