Results for "Fasta"


  • How to separate FASTA sequences by their name in files?

    I have one big file with lots of fasta sequences. I would like to separate the sequences by their name in files. Can anyone please help me to do so. Thanks for your time. Sample fasta sequences in file: >SBI_03055_PP_HisKa|Streptomyces bingchenggensis BCW-1MSSSDAARTGSAEGARDSKRVRTRRTLRDWIVDVC...

    Tags: FASTA, Sequences, Files, Perl

    1387 days ago

  • mahree khan

    Skills: Ms Office, C, C++, HTML, CSS, Data Structure, Java, Linux, Biochemistry, FASTA, BLAST

    107 days ago

  • GenBank to FASTA format conversion, Written By Junguk HUR #Perl #FASTA #Genbank

    Tags: Perl, FASTA, Genbank

    1333 days ago

  • Replace N characters with random nucleotide in a FASTA file.

    During sequencing and assembly process Fasta files typically contain invalid characters such as "NNNN", how can I remove those with randon nucleotide charaters A T G C.

    Tags: FASTA, Perl, N characters, Random

    1333 days ago

  • Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format. #FASTA #FASTAQ #NGS


    1093 days ago

  • FASTA error with Sift ?

    Can anyone tell me how to rectify the problem in Sift ? While am running the fasta sequence of my protein of interest its showing error after few minutes and  few times it giving job id but am not getting the result

    Tags: Protein, Sift, Error, FASTA, Server

    457 days ago

  • 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

    1375 days ago

  • 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

    1111 days ago

  • Clean the FASTA file

    Mostly FASTA file contain NNN characters, which can be replace by random A T G C character with this perl script. It also print the FASTA sequence name, N's counts, nucleotide count and percentage details at command prompt/standard output.  

    Tags: Fasta, Clean, Perl, NNN charaters

    1331 days ago

  • 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

    Tags: Perl, Extract, Fasta

    1086 days ago