BOL

Log in

Our Sponsors


Download BioinformaticsOnline(BOL) Apps in your chrome browser.


Results for "extract"

Tags

  • Shruti Paniwala

    Extract a fasta sequence from multifasta file: samtools faidx multitest.fa and then samtools faidx multitest.fa fasta_id > out.fa #Samtools #Fasta #Extract #Multifasta

    Tags: Samtools, Fasta, Extract, Multifasta

    2748 days ago

  • Abhimanyu Singh

    #Extract a #sequence from #multi-fasta file: $ perl -ne 'if(/^>(\S+)/){$c=grep{/^$1$/}qw(id1 id2)}print if $c' fasta.file

    Tags: Extract, sequence, multi

    2610 days ago

  • Jit

    Find a pattern in first 7 characters of reads. bioawk -c fastx 'substr($seq,0,7) == $TAG { print }' reads.fq.gz #Reads #NGS #Extract #Pattern

    Tags: Reads, NGS, Extract, Pattern

    2501 days ago

  • Rahul Nayak

    Get the sequences using coordinates in bed file. $ bedtools getfasta -fi input_file.fa -bed regions_file.bed #Bed #Extract #Sequence #bedtools

    Tags: Bed, Extract, Sequence, bedtools

    2244 days ago

  • Rahul Nayak

    #Extract all the files from a #directory and #sub-dir with #pattern. $ find TrimmedDir -type f | grep "L_" | xargs -i cp {} .

    Tags: Extract, directory, sub, pattern

    2230 days ago

  • Jit

    Extract sequence by ids $ xargs samtools faidx Adineta_vaga.v2.pep.fa < AlienIds > allAlienSeq.fa #Extract #Ids #Sequences

    Tags: Extract, Ids, Sequences

    1965 days ago

  • Jit

    Extract fasta with pattern $ perl -n -e '$on=(/^>(A)/) if (/^>/); print $_ if ($on);' pilonCor_round1.fasta > A_set.fa #Pattern #Extract #Fasta

    Tags: Pattern, Extract, Fasta

    1910 days ago

  • Poonam Mahapatra

    How to extract all the reads mapped at specific region in a genome?

     I want to extract all the reads mapped at chr5: 200-6000. 

    Tags: extract, reads, mapped, bam, sam, ngs

    2288 days ago

  • Manisha Mishra

    Extract fasta with Ids. $ perl -ne 'if(/^>(\S+)/){$c=grep{/^$1$/}qw(id1 id2)}print if $c' fasta.file #extract #fasta #sequence #ids

    Tags: extract, fasta, sequence, ids

    2210 days ago

  • Rahul Agarwal

    https://scrapy.org/ #extract #data #from #websites #webscraping

    Tags: extract, data, from, websites, webscraping

    2185 days ago

Powered by Elgg