how to calculate all pairwise distances in two dimensions and transform them into a matrix
Hello to all,
I am very new in the shell scripting and I need help. I have data for several individuals in several rows followed by a tag and by 5 values per row, with the name of the individual in the first column, e.g.:
I would like to calculate the sum of the absolute values of the pairwise differences between individuals. For instance:
Code:
Distance between IND1 and IND2=|12-12|+|13-12|+|12-15|+|15-14|+|14-14|= 5
Distance between IND1 and IND3=|12-12|+|13-15|+|12-12|+|15-14|+|14-11|= 6
Distance between IND2 and IND3=|12-12|+|12-15|+|15-12|+|14-14|+|14-11|= 9
Additionally, if the tags of two individuals are different, I would like to sum 100 to the final number. So finally the distance between:
IND1 and IND2 would be = 5 + 100 = 105
IND1 and IND3 would be = 6 + 0 = 6
IND2 and IND3 would be = 9 + 100 = 109
After this, I would like to transform this list of distances into a matrix:
Code:
IND1 IND2 IND3
IND1
IND2 105
IND3 6 109
Could some one help me with this? Thanks a lot in advance! Best!
Hi,
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During the check-out process of an item , a unix shell script will be called to process the item. If the item contains a ‘$' character, it will... (0 Replies)
I have a large numbers of files containing data that look like this:
(ID31:0.01682,(ID-123:0.00000,(ID_24:0.00000,ID&890:0.00000):0.00000):0.00000,ID12876:0.00000);
(ID_24:-0.00052,(ID31:0.01697,(ID-123:-0.00059,ID&890:0.03528):0.00037):0.00027,ID12876:0.03484);
I need to find ":" anywhere... (6 Replies)
Hi Friends,
I have an input matrix file like this
Col1 Col2 Col3 Col4
R1 1 2 3 4
R2 4 5 6 7
R3 5 6 7 8
I would like to consider only the numeric values without touching the column header and the row header.
I looked up on the forum's search, and I found this. But, I donno how to... (3 Replies)
I have to remove sequences from a file based on the distance value. I am attaching the file containing the distances (Distance.xls)
The second file looks something like this:
Sequences.txt
>Sample1 Freq 59
ggatatgatgatgaactggt
>Sample1 Freq 54
ggatatgatgttgaactggt
>Sample1 Freq 44... (2 Replies)
This matrix represents correlation values.
Is it possible to calculate the percentage of columns (a1, a2, a3) that have a value >= |0.5| and report the percentage that has positive correlation >0.5 and negative correlation <-0.5 separately. thanx in advance!
input
name a1 a2 a3... (5 Replies)
The following code transform the matrix to columns. Is it possible to do it other way around ( get the input from the output) ?
input
y1 y2 y3 y4 y5
x1 0.3 0.5 2.3 3.1 5.1
x2 1.2 4.1 3.5 1.7 1.2
x3 3.1 2.1 1.0 4.1 2.1
x4 5.0 4.0 6.0 7.0 1.1
output
x1 y1 0.3
x2 y1 1.2
x3... (1 Reply)
File 1 contains the list of words that needed to be randomly paired:
Tiger
Cat
Fish
Frog
Dog
Mouse
Elephant
Monkey
File 2 contains the pairs that should not be used (in any solution) during random pairing.
Elephant-Dog
Cat-Fish
Monkey-Frog
Dog-Elephant, Fish-Cat, Frog-Monkey... (1 Reply)
Discussion started by: sammy777888
1 Replies
LEARN ABOUT XFREE86
git-ls-remote
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] [--refs] [--upload-pack=<exec>]
[-q | --quiet] [--exit-code] [--get-url]
[--symref] [<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.
--refs
Do not show peeled tags or pseudorefs like HEAD in the output.
-q, --quiet
Do not print remote URL to stderr.
--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.
--symref
In addition to the object pointed by it, show the underlying ref pointed by it when showing a symbolic ref. Currently, upload-pack only
shows the symref HEAD, so it will be the only one shown by ls-remote.
<repository>
The "remote" repository to query. This parameter can be either a URL or the name of a remote (see the GIT URLS and REMOTES sections of
git-fetch(1)).
<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
$ git remote add korg http://www.kernel.org/pub/scm/git/git.git
$ git ls-remote --tags korg 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 2.17.1 10/05/2018 GIT-LS-REMOTE(1)
11-28-2011
