User: Neal

gravatar for Neal
Neal50
Reputation:
50
Status:
New User
Location:
Norway
Last seen:
3 years, 2 months ago
Joined:
7 years, 11 months ago
Email:
n*******@gmail.com

Moving from wet lab to dry lab and grappling with the beauty and complexity of big data.

Posts by Neal

<prev • 23 results • page 2 of 3 • next >
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Comment: C: Perl: Ignoring Repetitive K-Mers In Hash Construction
... Hi Kenosis, Michael's code snippet solves the logic where I was stuck. I had to check the existence of the key before assigning the values in arrays. ...
written 7.1 years ago by Neal50
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Comment: C: Perl: Ignoring Repetitive K-Mers In Hash Construction
... Hi Michael! Thanks for your input! It works perfectly! Just one small query, would it be possible to explain what the I: and J: mean and would the loops falter without them? ...
written 7.1 years ago by Neal50
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Comment: C: Perl: Ignoring Repetitive K-Mers In Hash Construction
... Hi Kenosis, thanks for your comment. The expected output is indeed "GATG ATGC ATGT" for the given sample input of "ACGTTGCATGTCGCATGATGCATGAGAGCT ", Each of these kmers,with 1 mismatch. has 5 fuzzy matches. Other kmers have fewer fuzzy matches. ...
written 7.1 years ago by Neal50
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Comment: C: Perl :Fuzzy Matching Problem
... Ah now I understand it much more clearly!! I reiterate that this code is sheer brilliance! By the way, I have used your subroutine in another code, but I am stuck on a particular logical challenge of that code. I would be grateful for your time if you could have a look here :Perl: Ignoring repetitiv ...
written 7.1 years ago by Neal50
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Perl: Ignoring Repetitive K-Mers In Hash Construction
... Hello all, I am trying to find the most frequent k-mers with "n" mismatches. But I'm running into a problem while creating a hash table of such k-mers. Sample Input:ACGTTGCATGTCGCATGATGCATGAGAGCT k-mer size:4 mismatch:1 Output: GATG ATGC ATGT My code's logic is as follows: 1. Extract all kmer ...
perl written 7.1 years ago by Neal50 • updated 7.1 years ago by Michael Dondrup48k
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Comment: C: Perl :Fuzzy Matching Problem
... So if I understand correctly, using ^ , if $s1 and $s2 are identical \x00 would be true and $diffCount would be 0; conversely when $s1 and $s2 are different, ^\x00 stores the the character difference which gets assigned to $diffcount. This is awesome stuff! ...
written 7.1 years ago by Neal50
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Comment: C: Perl :Fuzzy Matching Problem
... Many thanks Kenosis and exactly what was needed! This method is completely new for me! Would you be able to please explain this line of code my $diffCount = () = ( $s1 ^ $s2 ) =~ /[^\x00]/g;. Specifically what does () perform? I understand ^ is comparing $s1 and $s2. Also, it would be great if a res ...
written 7.1 years ago by Neal50
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Perl :Fuzzy Matching Problem
... Hello all, I am looking to implement fuzzy matching in Perl using the module use String::Approx I need 3 mismatches. However, I am unable to implement the modifiers appropriately to get the desired outcome. Input string:CGCCCGAATCCAGAACGCATTCCCATATTTCGGGACCACTGGCCTCCACGGTACGGACGTCAATCAAAT Patt ...
perl written 7.1 years ago by Neal50 • updated 18 months ago by Biostar ♦♦ 20
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Comment: C: Perl :Shuffle An Array 10 Times, Computing 10 Average Maxes, Printing The Mean M
... After this is where I am getting stuck. 10 shufflings of main array @arr is giving 10 values each of $average_max1 and $average_max2. I need a way to find the average of 10 $average_max1 , let's call it $superaverage1, similarly the average of 10 $average_max2 needs to be found, let's call it $supe ...
written 7.9 years ago by Neal50
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Comment: C: Perl :Shuffle An Array 10 Times, Computing 10 Average Maxes, Printing The Mean M
... @SES Hello SES! I'm sorry for replying late as I was not in my lab the past 2 days. And many thanks for going through my question and attempting to resolve it. However, I think I need to explain myself a bit more. The individual values in the rows need not be shuffled. It is the rows per se which ne ...
written 7.9 years ago by Neal50

Latest awards to Neal

Popular Question 4.4 years ago, created a question with more than 1,000 views. For Perl: Ignoring Repetitive K-Mers In Hash Construction
Popular Question 4.7 years ago, created a question with more than 1,000 views. For Perl: Ignoring Repetitive K-Mers In Hash Construction
Supporter 4.7 years ago, voted at least 25 times.
Popular Question 6.0 years ago, created a question with more than 1,000 views. For Perl :Fuzzy Matching Problem
Scholar 6.0 years ago, created an answer that has been accepted. For A: liftOver error: not reading the coordinate position correctly?
Autobiographer 6.0 years ago, has more than 80 characters in the information field of the user's profile.
Popular Question 6.6 years ago, created a question with more than 1,000 views. For Perl :Fuzzy Matching Problem

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