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Results for "Fasta"

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  • Rahul Agarwal

    Download mutliple fasta file from NCBI in one GO!!

    if you have less time, then use three ways mentioned in bookmark link to extract/download all fasta sequences in single click given that you already have a list of GIs or accession IDs . Alternatively, use one liner perl script: perl -ne 'if(/^>(\S+)/){$c=$i{$1}}$c?print:chomp;$i{$_}=1 if @A...

    Tags: fasta, multiple fasta, ncbi, entrez, perl

    3894 days ago

  • Neelam Jha

    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

    Tags: fastaQ2fasta, fastaq, fasta, Oneliner

    3630 days ago

  • Jit

    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

    Tags: Multi, fasta, multi, genome, files

    1123 days ago

  • Jit

    Remove the unnecessary #fasta #header. $ sed 's/\s.*$//' Adineta_vaga_v2.0.scaffolds.fa > new_file.fasta

    Tags: fasta, header

    2479 days ago

  • Neelam Jha

    How to download all mammalian protein fasta files ?

    I want to download all the mammalian protein fasta files. Is there any quick way to download all in one click? 

    Tags: mammalian, fasta, protein

    2466 days ago

  • Rahul Nayak

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

    Tags: fasta, file, header, charater

    2466 days ago

  • Rahul Nayak

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

    Tags: fasta, header, sed

    2466 days ago

  • Archana Malhotra

    How to remove a fasta sequence by header from a multifasta file ?

    >AAAAGTCGTGC >BBBAGTGCGGGTG Remove AAA and keep only BBB

    Tags: remove, delete, multifasta, fasta, header

    2354 days ago

  • Jit

    Fastq 2 fasta. $ sed -n '1~4s/^@/>/p;2~4p' test.fastq > test.fasta #fastq #fasta #convert

    Tags: fastq, fasta, convert

    2339 days ago

  • Radha Agarkar

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

    Tags: fasta, remove

    2329 days ago

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