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Full Discussion: Matrix parsing help !
Top Forums Programming Matrix parsing help ! Post 302586729 by mchimich on Tuesday 3rd of January 2012 05:42:52 AM
Old 01-03-2012
Matrix parsing help !

Hello every body ! I'm a new in this forum and beginner in Perl scripting and I have some problems SmilieSmilieSmilie! I have a big file like that :
Code:
ID1                   ID2                       Identity 
chromosome07_194379   chromosome01_168057       0.975
chromosome01_100293   chromosome01_168057       0.969
chromosome01_100293   chromosome07_194379       0.969
chromosome01_29385    chromosome01_168057       0.856
chromosome01_29385    chromosome07_194379       0.856
chromosome01_29385    chromosome01_100293       0.861
chromosome08_116839   chromosome01_168057       0.78
chromosome08_116839   chromosome01_100293       0.786
chromosome08_116839   chromosome01_293853       0.946

The three column are separated by tabulation (\t)

I want to cluster the IDs that share a identity more than 0.8 using Perl scripting, can someone help me ?
Thanks a lot in advance for your help

Moderator's Comments:
Mod Comment Please use code tags!

Last edited by zaxxon; 01-03-2012 at 06:53 AM.. Reason: code tags
 

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GIT-LS-REMOTE(1)						    Git Manual							  GIT-LS-REMOTE(1)

NAME
git-ls-remote - List references in a remote repository SYNOPSIS
git ls-remote [--heads] [--tags] [-u <exec> | --upload-pack <exec>] [--exit-code] <repository> [<refs>...] DESCRIPTION
Displays references available in a remote repository along with the associated commit IDs. OPTIONS
-h, --heads, -t, --tags Limit to only refs/heads and refs/tags, respectively. These options are not mutually exclusive; when given both, references stored in refs/heads and refs/tags are displayed. -u <exec>, --upload-pack=<exec> Specify the full path of git-upload-pack on the remote host. This allows listing references from repositories accessed via SSH and where the SSH daemon does not use the PATH configured by the user. --exit-code Exit with status "2" when no matching refs are found in the remote repository. Usually the command exits with status "0" to indicate it successfully talked with the remote repository, whether it found any matching refs. --get-url Expand the URL of the given remote repository taking into account any "url.<base>.insteadOf" config setting (See git-config(1)) and exit without talking to the remote. <repository> Location of the repository. The shorthand defined in $GIT_DIR/branches/ can be used. Use "." (dot) to list references in the local repository. <refs>... When unspecified, all references, after filtering done with --heads and --tags, are shown. When <refs>... are specified, only references matching the given patterns are displayed. EXAMPLES
$ git ls-remote --tags ./. d6602ec5194c87b0fc87103ca4d67251c76f233a refs/tags/v0.99 f25a265a342aed6041ab0cc484224d9ca54b6f41 refs/tags/v0.99.1 7ceca275d047c90c0c7d5afb13ab97efdf51bd6e refs/tags/v0.99.3 c5db5456ae3b0873fc659c19fafdde22313cc441 refs/tags/v0.99.2 0918385dbd9656cab0d1d81ba7453d49bbc16250 refs/tags/junio-gpg-pub $ git ls-remote http://www.kernel.org/pub/scm/git/git.git master pu rc 5fe978a5381f1fbad26a80e682ddd2a401966740 refs/heads/master c781a84b5204fb294c9ccc79f8b3baceeb32c061 refs/heads/pu b1d096f2926c4e37c9c0b6a7bf2119bedaa277cb refs/heads/rc $ echo http://www.kernel.org/pub/scm/git/git.git >.git/branches/public $ git ls-remote --tags public v* d6602ec5194c87b0fc87103ca4d67251c76f233a refs/tags/v0.99 f25a265a342aed6041ab0cc484224d9ca54b6f41 refs/tags/v0.99.1 c5db5456ae3b0873fc659c19fafdde22313cc441 refs/tags/v0.99.2 7ceca275d047c90c0c7d5afb13ab97efdf51bd6e refs/tags/v0.99.3 GIT
Part of the git(1) suite Git 1.8.3.1 06/10/2014 GIT-LS-REMOTE(1)
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