Beefy Boxes and Bandwidth Generously Provided by pair Networks
Do you know where your variables are?
 
PerlMonks  

Comment on

( #3333=superdoc: print w/ replies, xml ) Need Help??
Right now it is simply a fasta file. Fasta files are for storing DNA sequence information and they are formatted as following.

>nameofsequence\n

ATCGTACGTTGCTE\n

>anothername\n

GTCTGT\n

so that a line starting with > containing a sequence name is followed by a line containing sequences nucleotide information

I am thinking of dredging them in 4 lines a time, because I have reasons to suspect that due to some certain previous operations there might be sequences directly following eachother with different names (on >sequencename\n line) but exactly the same sequence information (on following ATGCTGT\n line). Right now I'm looking to identify and remove such duplicates but I might make use of scripts dealing with many comparision extraction etc. of neighbouring sequences in my files. (Two neigbours means four lines)

In reply to Re^4: Reading files n lines a time by naturalsciences
in thread Reading files n lines a time by naturalsciences

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post; it's "PerlMonks-approved HTML":



  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.
  • Log In?
    Username:
    Password:

    What's my password?
    Create A New User
    Chatterbox?
    and the web crawler heard nothing...

    How do I use this? | Other CB clients
    Other Users?
    Others exploiting the Monastery: (12)
    As of 2015-07-02 08:37 GMT
    Sections?
    Information?
    Find Nodes?
    Leftovers?
      Voting Booth?

      The top three priorities of my open tasks are (in descending order of likelihood to be worked on) ...









      Results (31 votes), past polls