BOL: Wire posts tagged with 'Size'

Wire post by LEGE

LEGE — Mon, 25 Nov 2019 09:23:51 -0600

#Estimate the #insert #size with mapped reads $ head -10000 mappings.sam | awk '{ if ($9 > 0) { N+=1; S+=$9; S2+=$9*$9 }} END { M=S/N; print "n="N", mean="M", stdev="sqrt ((S2-M*M*N)/(N-1))}'

Wire post by Neel

Neel — Thu, 17 Oct 2019 05:43:59 -0500

List all files by size in Linux $ ls -l -S | sort -k 5 -n #Linux #Size #List

Wire post by BioStar

BioStar — Mon, 15 Oct 2018 07:00:57 -0500

Check the file systems and sizes. $ df --block-size=G #Linux #Size #df

Wire post by Rahul Nayak

Rahul Nayak — Mon, 06 Aug 2018 07:52:55 -0500

du -sh * | sort | grep "G" #List size of all the directory #Size #List #Directory #Linux

Wire post by Aaryan Lokwani

Aaryan Lokwani — Fri, 22 Jun 2018 04:41:13 -0500

Count the contigs length in index fasta file with samtools. $ awk '{s+=$2}END{print s}' scaffolds.fasta.fai #Fasta #Index #Length #Count #Size #Samtools

Wire post by Jit

Jit — Thu, 15 Feb 2018 10:16:00 -0600

Estimate the genome size https://bioinformatics.uconn.edu/genome-size-estimation-tutorial/ #Genome #Size #Estimate

Wire post by Neel

Neel — Wed, 02 Aug 2017 04:50:14 -0500

Reformat you fasta sequence with size. $ seqkit seq -w 50 allGenomeContacted.fa > allGenomeContacted_final.fa #Reformat #Fasta #Size

Wire post by Jit

Jit — Mon, 10 Jul 2017 09:19:55 -0500

#Filter out #reads with #size to discard reads containing many Ns. BBNorm ( https://sourceforge.net/projects/bbmap/ )

Wire post by Jit

Jit — Wed, 05 Jul 2017 11:02:44 -0500

Split the file in Linux with size. $ split --bytes=50M aaaa.fa #split #linux #size

Wire post by Rahul Nayak

Rahul Nayak — Fri, 30 Jun 2017 04:11:21 -0500

To know the size of the directory in current folder. $ du -sh * #Size #Directory #List #Space #Linux #du

Wire post by Jit

Jit — Mon, 05 Sep 2016 10:11:15 -0500

Find a file with certain size and delete them: $ find . -name "see-D-d-ALN_*" -size -10k -delete #Delete #Size #Linux #Tricks

Wire post by Jit

Jit — Mon, 22 Aug 2016 09:23:58 -0500

du -sh * will give you the size of all the directories,files etc in current directory in human readable format. #Linux #Size #Tricks #Folders #Files