https://bioinformaticsonline.com/thewire/owner/poonam?offset=0 https://bioinformaticsonline.com/thewire/view/36823 Wed, 30 May 2018 11:13:10 -0500 https://bioinformaticsonline.com/thewire/view/36823 10 PhD positions in Poland http://www.wb.uj.edu.pl/en_GB/studia/phd-biology/recruitment #Poland #PhD

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/36641 Tue, 15 May 2018 09:48:05 -0500 https://bioinformaticsonline.com/thewire/view/36641 Convert 2bit to psl $ blat myAssembly.2bit -oneOff=0 -noHead myQueryContigSeqs.fa myHits.psl #Convert #psl #2bit #blat

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/36638 Tue, 15 May 2018 09:46:57 -0500 https://bioinformaticsonline.com/thewire/view/36638 Convert fasta to 2bit $ faToTwoBit myAssembly.fa myAssembly.2bit #Fasta #2bit #Convert

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/36230 Mon, 16 Apr 2018 03:54:11 -0500 https://bioinformaticsonline.com/thewire/view/36230 https://www.ncbi.nlm.nih.gov/Class/NAWBIS/Modules/Phylogenetics/phylo12.html #P-distance #Distance #Calculation #Sequences #Align

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/35037 Wed, 03 Jan 2018 00:31:12 -0600 https://bioinformaticsonline.com/thewire/view/35037 Convert interleaved to separate files with BBmap. $ reformat.sh in=reads.fq out1=reads_r1.fq out2=reads_r2.fq #interleave #fastq #seperate #reformat #bbmap

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/34603 Mon, 11 Dec 2017 04:22:59 -0600 https://bioinformaticsonline.com/thewire/view/34603 Remove duplicate fasta ids: awk '/^>/{f=!d[$1];d[$1]=1}f' in.fa > out.fa #duplicate #fasta #ids

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/33935 Thu, 20 Jul 2017 05:13:51 -0500 https://bioinformaticsonline.com/thewire/view/33935 Bioinformatics faculty WalkIn https://www.pdkv.ac.in/Recruitment/wii-teachervncab-040717.pdf #WalkIn #Bioinformatics

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/33498 Mon, 12 Jun 2017 03:34:48 -0500 https://bioinformaticsonline.com/thewire/view/33498 WalkIn for Bioinformatics at CIFRI http://www.cifri.res.in/wknintrwv1.pdf #CIFRI #WalkIn

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/32108 Wed, 05 Apr 2017 17:16:25 -0500 https://bioinformaticsonline.com/thewire/view/32108 Bootstrapping with R http://www.burns-stat.com/documents/tutorials/the-statistical-bootstrap-and-other-resampling-methods-2/

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/31898 Thu, 30 Mar 2017 04:35:18 -0500 https://bioinformaticsonline.com/thewire/view/31898 https://github.com/institut-de-genomique/NaS #Assembly

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/30043 Wed, 07 Dec 2016 08:46:54 -0600 https://bioinformaticsonline.com/thewire/view/30043 BLAST cheats heat http://www.vicbioinformatics.com/documents/Quick_Start_Guide_BLAST_to_BLAST+.pdf #BLAST #NCBI #Cheat

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/28924 Mon, 29 Aug 2016 11:46:14 -0500 https://bioinformaticsonline.com/thewire/view/28924 DiscovarDenovo assembly ppt https://banana-slug.soe.ucsc.edu/_media/team_5_report_1.pdf #PPT #Assembly #Help #Steps

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/28917 Mon, 29 Aug 2016 04:16:45 -0500 https://bioinformaticsonline.com/thewire/view/28917 Gaze for gene prediction http://www.ncbi.nlm.nih.gov/pmc/articles/PMC186661/ # Genes #Predictions #Genome #Tools #Gaze

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/28620 Fri, 05 Aug 2016 04:08:30 -0500 https://bioinformaticsonline.com/thewire/view/28620 Replace space with tab: perl -lpe 's/\s/\t/g' < trf_file.dat > outfile.txt #TRF #Tab #Space #Replace #Perl #PerlTrick #PerlOneliner

]]> Poonam Mahapatra https://bioinformaticsonline.com/thewire/view/28413 Wed, 13 Jul 2016 07:06:12 -0500 https://bioinformaticsonline.com/thewire/view/28413 #Hierarchical cluster analysis http://www.econ.upf.edu/~michael/stanford/maeb7.pdf

]]> Poonam Mahapatra