Re: The sum of absolute differences in the counts of chars in two strings.

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Re^2: The sum of absolute differences in the counts of chars in two strings. by BrowserUk (Patriarch) on Nov 19, 2011 at 18:24 UTC
The strings could contain anything and be of any length, but the example I'm working with is genomic data and less than 100 chars. A worked example: `aaaaacaacaaagcc :: a=>10 c=>4 g=>1 t=>0 acaggtgacaaaaaa :: a=>9 c=>2 g=>3 t=>1 absolute diffs :: 1 2 2 1 sum of diffs :: 6` [download] It would be wrong to assume an alphabet of 4 even for genomic data. With the rise and rise of 'Social' network sites: 'Computers are making people easier to use everyday' Examine what is said, not who speaks -- Silence betokens consent -- Love the truth but pardon error. "Science is about questioning the status quo. Questioning authority". In the absence of evidence, opinion is indistinguishable from prejudice.	[reply] [d/l]
Re^3: The sum of absolute differences in the counts of chars in two strings. by Limbic~Region (Chancellor) on Nov 20, 2011 at 01:23 UTC
BrowserUk, I don't understand the example. Should that t => 0 and t => 1 be 1 not 2? Update: I am not going to have a chance to play with any of my ideas so I will just share them here in case they are of any help. I was hoping that there would be a way to "cancel out terms" such that there was less work to do. The two ideas I had for that would be performing bitwise operations on the strings to find out which characters were in common and only counting the remaining ones. The second idea I had would be to process the string in chunks rather than characters. If I were trying to do a generic solution though - I would like go with Inline::C (array vs hash) incrementing values for the first string, decrementing values for the second string and summing the 256 indices for the result in the end. Cheers - L~R	[reply]
Re^4: The sum of absolute differences in the counts of chars in two strings. by BrowserUk (Patriarch) on Nov 20, 2011 at 13:14 UTC
Should that t => 0 and t => 1 be 1 not 2? Yes. Now corrected. With the rise and rise of 'Social' network sites: 'Computers are making people easier to use everyday' Examine what is said, not who speaks -- Silence betokens consent -- Love the truth but pardon error. "Science is about questioning the status quo. Questioning authority". In the absence of evidence, opinion is indistinguishable from prejudice.	[reply]
Re^3: The sum of absolute differences in the counts of chars in two strings. by remiah (Hermit) on Nov 20, 2011 at 00:35 UTC
How about count others (not agct) as an exception? `my $aa="AGCTAAABBBCCC"; my %k=(a=>"a",g=>"g",c=>"c",t=>"t",else=>"[^agct]"); my %all; while( my($k,$pattern)=each %k ){ $all{$k}++ while ($aa =~ m/$pattern/gi); }` [download]	[reply] [d/l]