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Results for "fasta"

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• • Rahul Nayak@rahul

  

  GenBank to FASTA format conversion, Written By Junguk HUR http://tinyurl.com/ntp7w5v #Perl #FASTA #Genbank

  3851 days ago

• • Jit@jit.aber

  

  perl -nle 'if (/^>/) { $sl = 0; print; next } next if ($sl >= 200); $_ = substr($_, 0, 200-$sl) if ($sl + length($_) > 200); $sl += length($_); print;' file.fa >new.fa #Perl #Extract #Fasta

  3605 days ago

• • Jit@jit.aber

  

  Remove N from a fasta file. Go to vi editor, type :%s/N\{25,\}//g and press enter. #Vim #vi #N #Replace #Fasta

  3605 days ago

• • Jit@jit.aber

  

  Remove the blank space from a fasta file. perl -nlwe 'tr/ //d; print if length' fileName #Delete #Space #Fasta #Perl #Oneliner

  3605 days ago

• • Neelam Jha@neelam

  

  zcat input_file.fastq.gz | awk 'NR%4==1{printf ">%s\n", substr($0,2)}NR%4==2{print}' > output_file.fa #fastaQ2fasta #fastaq #fasta #Oneliner

  3630 days ago

• • Jit@jit.aber

  

  FastaQ 2 Fasta Oneliner: paste - - - -< totalRNA_placental_1.fastq | perl -pale'$_="@F[0..1]"'|tr "\^@" "\>" | perl -pale 's/\s/\n/g' #Oneliner #NGS #FastaQ #Fasta

  3618 days ago

• • Jitendra Narayan@admin

  

  Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format. https://github.com/lh3/seqtk #FASTA #FASTAQ #NGS

  3612 days ago

• • Aaryan Lokwani@aaryan

  

  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

  2128 days ago

• • Jit@jit.aber

  

  To count number of fasta entries, I use: grep -c '^>' mySequences.fasta #Perl #Count #Number #Fasta #Linux #Grep

  3560 days ago

• • Jit@jit.aber

  

  Multi fasta to single fasta files $ perl -ne 'if (/^>(\S+)/) { close OUT; open OUT, ">$1.fasta" } print OUT' genome.fasta #Multi-fasta #fasta #multi #genome #files

  1123 days ago

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