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• • Poonam Mahapatra@poonam

  

  #Extract all #Reads from #BAM file for a #region Chr10:18000-45500 using #samtools: samtools view input.bam "Chr10:18000-45500" > output.bam

  2880 days ago

• • Jit@jit.aber

  

  Scripts required to calculate tetramer frequencies and create input files for ESOM https://github.com/tetramerFreqs/Binning #Bin #Tetramer

  2625 days ago

• • Radha Agarkar@radhaagarkar

  

  Remove the fasta with zero size: awk 'BEGIN {RS = ">" ; FS = "\n" ; ORS = ""} $2 {print ">"$0}' input.fas > output.fas #fasta #remove

  2353 days ago

• • Jit@jit.aber

  

  samtools view -f 256 Input.bam | awk '$6 ~/S/ && $7 == "=" {print $0}' > Secondary_clipped.sam

  2302 days ago

• • BioStar@biostar

  

  Split the fasta $ pyfasta split -k 100 -o 20 input.fasta -n 1 #split #pyfasta #overlaps

  2056 days ago

• • LEGE@lege

  

  Multiline to singleline covert. $ awk '/^>/ {printf("%s%s\t",(N>0?"\n":""),$0);N++;next;} {printf("%s",$0);} END {printf("\n");}' < input.fa #Multi #Single #Convert #awk

  1631 days ago

• • Rahul Nayak@rahul

  

  Grep a term from a file in Linux. $ grep -A1 "term" input.fasta > output.fasta #Grep #Term

  1607 days ago

• • BioStar@biostar

  

  Split the #multifasta to #singlefasta awk '$0 ~ "^>" { match($1, /^>([^:]+)/, id); filename=id[1]} {print >> filename".fa"}' input.fa

  1409 days ago

• • Abhinav@abhinav

  

  The CPC sever accepts RNA #transcript sequences as input, and outputs assessed #protein-coding potential of the transcripts. http://cpc2.gao-lab.org/about.php

  910 days ago