Extra column 6 should be added in column 6. Rows, with repeated valued in column 5, should be extracted and extra column 6 is added with renumbering from 1 to n.
Hi All,
I have an input below and i would want to do a count on all the term "aaa" and count only once if the number in first column is the same.
For eg, if i use a "grep -c aaa input" command, the count will be "8".
However, i would want the count to be "6" instead since 2 numbers in the 1st... (7 Replies)
Hi,
I am a beginner in awk scripting! I need your help; I want to replace the fifth column number (which is 15 here) here in this file for example :
ATOM 142 N PRO A 15
ATOM 143 CD PRO A 15
ATOM 144 HD1 PRO A 15
ATOM ... (5 Replies)
Hi All,
I have the following input which i want to process using AWK.
Rows,NC,amount
1,1202,0.192387
2,1201,0.111111
3,1201,0.123456
i want the following output
count of rows = 3 ,sum of amount = 0.426954
Many thanks (2 Replies)
im trying to count the number of occurences of column 2 value(starting from KKK*) of the below file, file.txt
using the code cat file.txt | awk ' BEGIN { print "Category Counts"} {FS=","} {NR > 2} { cats = cats + 1} END { for(c in cats) { print c, "=", cats} } '
but its returning as
... (6 Replies)
Could anybody help with this?
I have input below .....
david,39
david,39
emelie,40
clarissa,22
bob,42
bob,42
tim,32
bob,39
david,38
emelie,47
what i want to do is count how many names there are with different ages, so output would be like this ....
david,2
emelie,2
clarissa,1... (3 Replies)
This is the source file, we called it errorlist.out
196 server_a server_unix_2 CD
196 server_b server_win_1 CD
196 server_c server_win_2 CD
196 server_bd server_unix_2 CD
196 server_d server_unix_2 CD
196 server_es server_win_1 CD
196 ... (14 Replies)
Hi
I was going through the below thread
https://www.unix.com/shell-programming-scripting/48535-how-count-number-fields-record.html
I too have something similar requirement as specified in this thread but the number of columns in my case can be very high, so I am getting following error.
... (3 Replies)
Hi i have data like
abchd 124 ldskc aattggcc
each separated by tab space i want to count number of characters in 4th column and print it in new column with tabspace for every line can anyone help me how to do it.
Thanks. (3 Replies)
Hi !
input:
A|B|C|D
A|F|C|E
A|B|I|C
A|T|I|B
As the title of the thread says, I would need to get:
1|3|2|4
I tried different variants of this command, but I don't manage to obtain what I need:
gawk 'BEGIN{FS=OFS="|"}{for(i=1; i<=NF; i++) a++} END {for (b in a) print b}' input
... (2 Replies)
What is an efficient way of counting the number of unique values in a 400 column by 1000 row array and outputting the counts per column, assuming the unique values in the array are:
A, B, C, D
In other words the output should look like: Value COL1 COL2 COL3
A 50 51 52... (16 Replies)
Discussion started by: Geneanalyst
16 Replies
LEARN ABOUT DEBIAN
bio::graphics::glyph::wiggle_density
Bio::Graphics::Glyph::wiggle_density(3pm) User Contributed Perl Documentation Bio::Graphics::Glyph::wiggle_density(3pm)NAME
Bio::Graphics::Glyph::wiggle_density - A density plot compatible with dense "wig"data
SYNOPSIS
See <Bio::Graphics::Panel> and <Bio::Graphics::Glyph>.
DESCRIPTION
This glyph works like the regular density but takes value data in Bio::Graphics::Wiggle file format:
reference = chr1
ChipCHIP Feature1 1..10000 wigfile=./test.wig;wigstart=0
ChipCHIP Feature2 10001..20000 wigfile=./test.wig;wigstart=656
ChipCHIP Feature3 25001..35000 wigfile=./test.wig;wigstart=1312
The "wigfile" attribute gives a relative or absolute pathname to a Bio::Graphics::Wiggle format file. The optional "wigstart" option gives
the offset to the start of the data. If not specified, a linear search will be used to find the data. The data consist of a packed binary
representation of the values in the feature, using a constant step such as present in tiling array data.
OPTIONS
The same as the regular graded_segments glyph, except that the following options are recognized:
Name Value Description
--------------------
basedir path Path to be used to resolve "wigfile" and "densefile"
tags giving relative paths. Default is to use the
current working directory. Absolute wigfile &
densefile paths will not be changed.
autoscale "local" or "global"
If one or more of min_score and max_score options
are absent, then these values will be calculated
automatically. The "autoscale" option controls how
the calculation is done. The "local" value will
scale values according to the minimum and maximum
values present in the window being graphed. "global"
will use chromosome-wide statistics for the entire
wiggle or dense file to find min and max values.
smoothing method name Smoothing method: one of "mean", "max", "min" or "none"
smoothing_window
integer Number of values across which data should be smoothed.
bicolor_pivot
name Where to pivot the two colors when drawing bicolor plots.
Options are "mean" and "zero". A numeric value can
also be provided.
pos_color color When drawing bicolor plots, the fill color to use for values
that are above the pivot point.
neg_color color When drawing bicolor plots, the fill color to use for values
that are below the pivot point.
SPECIAL FEATURE TAGS
The glyph expects one or more of the following tags (attributes) in feature it renders:
Name Value Description
--------------------
wigfile path name Path to the Bio::Graphics::Wiggle file for vales.
(required)
densefile path name Path to a Bio::Graphics::DenseFeature object
(deprecated)
denseoffset integer Integer offset to where the data begins in the
Bio::Graphics::DenseFeature file (deprecated)
densesize integer Integer size of the data in the Bio::Graphics::DenseFeature
file (deprecated)
BUGS
Please report them.
SEE ALSO
Bio::Graphics::Panel, Bio::Graphics::Glyph, Bio::Graphics::Glyph::arrow, Bio::Graphics::Glyph::cds, Bio::Graphics::Glyph::crossbox,
Bio::Graphics::Glyph::diamond, Bio::Graphics::Glyph::dna, Bio::Graphics::Glyph::dot, Bio::Graphics::Glyph::ellipse,
Bio::Graphics::Glyph::extending_arrow, Bio::Graphics::Glyph::generic, Bio::Graphics::Glyph::graded_segments,
Bio::Graphics::Glyph::heterogeneous_segments, Bio::Graphics::Glyph::line, Bio::Graphics::Glyph::pinsertion, Bio::Graphics::Glyph::primers,
Bio::Graphics::Glyph::rndrect, Bio::Graphics::Glyph::segments, Bio::Graphics::Glyph::ruler_arrow, Bio::Graphics::Glyph::toomany,
Bio::Graphics::Glyph::transcript, Bio::Graphics::Glyph::transcript2, Bio::Graphics::Glyph::translation, Bio::Graphics::Glyph::allele_tower,
Bio::DB::GFF, Bio::SeqI, Bio::SeqFeatureI, Bio::Das, GD
AUTHOR
Lincoln Stein <steinl@cshl.edu>.
Copyright (c) 2007 Cold Spring Harbor Laboratory
This package and its accompanying libraries is free software; you can redistribute it and/or modify it under the terms of the GPL (either
version 1, or at your option, any later version) or the Artistic License 2.0. Refer to LICENSE for the full license text. In addition,
please see DISCLAIMER.txt for disclaimers of warranty.
perl v5.14.2 2012-02-20 Bio::Graphics::Glyph::wiggle_density(3pm)
10-01-2018
