What overlapping problem? Using column 3, those do not overlap. Are we intended to count column 2 as well?
What I meant "overlapping" was for the range, for example:
this line N1 48 181 2 could overlap with two ranges:
so I just ignore columns 3 (181) and categorize it to range N1 0 99. Are all of them N1?
No, N1 means chromosome N1, so that there are 50 different strings, N1, N19, Scaff01 ... Sorry, I should provide a better sample with at least two chromosomes.
And output:
Last edited by yifangt; 03-01-2019 at 04:13 PM..
Reason: typo and markdown change
:confused: Hi i am a noob and need a little help to finish my shell script. I am learning as i go but hit a problem.
I am search thorugh logs(*.rv) files to find entires between two user defined dates,
The script so far looks for the "START" and "END" of each entry at sees if it belongs To... (0 Replies)
hi all,
I generally give an awk command to print multiple columns like this:
awk -F~ '{OFS=",";print $1,$2,$3,$4,$5,$6,$7,$8,$9,$10,$11,$12,$13}' test.txt
can't we give a range like :
awk -F~ '{OFS=",";print $1-$13}'
( I know this will subtract column 13 from 1)
or awk -F~... (1 Reply)
Hi All,
I am trying to add a column that contains the sum of the previous column repeated. IE
1
2
3
4
I would like to get:
1 10
2 10
3 10
4 10
Advice? I can get
1 1
2 3
3 6 (4 Replies)
I have some data that is something like this?
item: onhand counted location
ITEM0001 1 0 a1
ITEM0001 0 1 a2
ITEM0002 5 0 b5
ITEM0002 0 6 c1
I want to sum up... (6 Replies)
Hi All,
I am another biologist attempting to parse a large txt file containing several million lines like:
tucosnp 56762 T Y 228 228 60 23 .CcCcc,,..c.c,cc,,.C...
What I need to do is get the frequency of periods (.) plus commas (,) in column 9, and populate this number into another... (1 Reply)
Hi,
I am using the following code to find the sum of the values of column 286 in a file. It will have the Decimal values with the scale of 2. Delimiter is '|^'
cut -d'|^' -f286 filename|cut -c3-| awk '{ x += $1 } END { printf("%.2f\n", x) }'
There are around 50k records in this file... (2 Replies)
Hi,
I have a similar input format-
A_1 2
B_0 4
A_1 1
B_2 5
A_4 1
and looking to print in this output format with headers. can you suggest in awk?awk because i am doing some pattern matching from parent file to print column 1 of my input using awk already.Thanks!
letter number_of_letters... (5 Replies)
I have a file (let say file B) like this:
File B:
A1 3 5
A1 7 9
A2 2 5
A3 1 3
The first column defines a filename and the other two define a range in that specific file. In the same directory, I have also three more files (File A1, A2 and A3). Here is 10 sample lines... (3 Replies)
Hi Experts,
Please bear with me, i need help
I am learning AWk and stuck up in one issue.
First point : I want to sum up column value for column 7, 9, 11,13 and column15 if rows in column 5 are duplicates.No action to be taken for rows where value in column 5 is unique.
Second point : For... (1 Reply)
Discussion started by: as7951
1 Replies
LEARN ABOUT FREEBSD
comm
COMM(1) BSD General Commands Manual COMM(1)NAME
comm -- select or reject lines common to two files
SYNOPSIS
comm [-123i] file1 file2
DESCRIPTION
The comm utility reads file1 and file2, which should be sorted lexically, and produces three text columns as output: lines only in file1;
lines only in file2; and lines in both files.
The filename ``-'' means the standard input.
The following options are available:
-1 Suppress printing of column 1, lines only in file1.
-2 Suppress printing of column 2, lines only in file2.
-3 Suppress printing of column 3, lines common to both.
-i Case insensitive comparison of lines.
Each column will have a number of tab characters prepended to it equal to the number of lower numbered columns that are being printed. For
example, if column number two is being suppressed, lines printed in column number one will not have any tabs preceding them, and lines
printed in column number three will have one.
The comm utility assumes that the files are lexically sorted; all characters participate in line comparisons.
ENVIRONMENT
The LANG, LC_ALL, LC_COLLATE, and LC_CTYPE environment variables affect the execution of comm as described in environ(7).
EXIT STATUS
The comm utility exits 0 on success, and >0 if an error occurs.
SEE ALSO cmp(1), diff(1), sort(1), uniq(1)STANDARDS
The comm utility conforms to IEEE Std 1003.2-1992 (``POSIX.2'').
The -i option is an extension to the POSIX standard.
HISTORY
A comm command appeared in Version 4 AT&T UNIX.
BSD December 12, 2009 BSD