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• • Rahul Nayak@rahul

  

  Remove unwanted character from fasta file. sed -e '/^[^>]/s/[^ATGCatgc]/N/g' file.fa #fasta #file #header #charater

  2474 days ago

• • Rahul Nayak@rahul

  

  Remove "|" from fasta header. $ sed 's,|,_,g' -i file.fa #fasta #header #sed

  2474 days ago

• • Jit@jit.aber

  

  Remove unwanted character from fasta file. $ sed -e '/^[^>]/s/[^ATGCatgc]/N/g' file.fa #IUPAC #Special #Character #Remove

  2462 days ago

• • Jit@jit.aber

  

  Remove duplicated lines from text file. $ awk '!seen[$0]++' allIds #duplicate #lines #remove #awk

  2452 days ago

• • Jit@jit.aber

  

  Example commands to remove lower-case masking: perl -pe '/^[^>]/ and $_=uc' genomic.fna > genomic.unmasked.fna

  2357 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

  2337 days ago

• • Surabhi Chaudhary@surabhi

  

  Remove the unwanted characters from Fasta file: sed -e '/^[^>]/s/[^ATGCatgc]/N/g' infile.fa #sed #unwanted #illegal #remove #correct #fasta #linux

  2337 days ago

• • Poonam Mahapatra@poonam

  

  Remove duplicate fasta ids: awk '/^>/{f=!d[$1];d[$1]=1}f' in.fa > out.fa #duplicate #fasta #ids

  2329 days ago

• • Jit@jit.aber

  

  awk 'BEGIN {RS = ">" ; FS = "\n" ; ORS = ""} {if ($2) print ">"$0}' all_p_ctg.fa > all_p_ctg_CORRECTED.fa #remove #empty #clean #fasta

  2326 days ago

• • Jit@jit.aber

  

  #Remove a #sequence by id from multifasta: cat vaga.fa | awk '{if (substr($0,1) == ">scaffold_1 1087316 bp") censor=1; else if (substr($0,1,1) == ">") censor=0; if (censor==0) print $0}' > fixed.fasta

  2326 days ago

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