I have 2 files; file 1 having smaller positions that overlap with the positions with positions in file2.
file1
file2
I want to get something like this
output
Hi all,
I have difficulty to solve the followign problem.
mydata:
StartPoint EndPoint
22 55
2222 2230
33 66
44 58
222 240
11 25
22 60
33 45
The union of above... (2 Replies)
Dear Gurus,
I have 57 tab-delimited different text files, each one containing entries in 3 columns. The first column in each file contains names of objects. Some names are present in more than one file. I would like to find those names and store them in a separate text file, preferably with a... (6 Replies)
Hi, I have a file1 of many long sequences, each preceded by a unique header line. file2 is 3-columns list: headers name, start position, end position. I'd like to extract the sequence region of file1 specified in file2.
Based on a post elsewhere, I found the code:
awk... (2 Replies)
Discussion started by: pathunkathunk
2 Replies
4. Forum Support Area for Unregistered Users & Account Problems
The forums have been seeing a sharp increase in spam bots, forum robots, and malicious registrations from certain countries. If you have been directed to this thread due to a "No Permission Error" when trying to register please post in this thread and request permission to register, including... (1 Reply)
Hi I have 2 files; usually the end position in the file1 is the start position in the file2 and the end position in file2 will be the start position in file1 (flanks)
file1
Id start end
aaa1 0 3000070
aaa1 3095270 3095341
aaa1 3100822 3100894
aaa1 ... (1 Reply)
Hello, here I am posting my query again with modified data input files.
see my query is :
i have two input files file1 and file2.
file1 is smalldata.fasta
>gi|546671471|gb|AWWX01449637.1| Bubalus bubalis breed Mediterranean WGS:AWWX01:contig449636, whole genome shotgun sequence... (20 Replies)
Hi,
I have been trying to retrieve the names of files present in a directory one by one but the names of files are getting overlapped on one another.
I tried the below command.
ls -1 > filename
please help me in getting the file names line by line without overlapping. I am using korn... (6 Replies)
Hi all,
I have a file like this I want to extract only those regions which are big and continous
chr1 3280000 3440000
chr1 3440000 3920000
chr1 3600000 3920000 # region coming within the 3440000 3920000. so i don't want it to be printed in output
chr1 3920000 4800000
chr1 ... (2 Replies)
Discussion started by: amrutha_sastry
2 Replies
LEARN ABOUT ULTRIX
cut
cut(1) General Commands Manual cut(1)Name
cut - cut out selected fields of each line of a file
Syntax
cut -clist [file1 file2...]
cut -flist [-dchar] [-s] [file1 file2...]
Description
Use the command to cut out columns from a table or fields from each line of a file. The fields as specified by list can be fixed length,
that is, character positions as on a punched card (-c option), or the length can vary from line to line and be marked with a field delim-
iter character like tab (-f option). The command can be used as a filter. If no files are given, the standard input is used.
Use to make horizontal ``cuts'' (by context) through a file, or to put files together in columns. To reorder columns in a table, use and
Options
list Specifies ranges that must be a comma-separated list of integer field numbers in increasing order. With optional - indicates
ranges as in the -o option of nroff/troff for page ranges; for example, 1,4,7; 1-3,8; -5,10 (short for 1-5,10); or 3- (short
for third through last field).
-clist Specifies character positions to be cut out. For example, -c1-72 would pass the first 72 characters of each line.
-flist Specifies the fields to be cut out. For example, -f1,7 copies the first and seventh field only. Lines with no field delim-
iters are passed through intact (useful for table subheadings), unless -s is specified.
-dchar Uses the specified character as the field delimiter. Default is tab. Space or other characters with special meaning to the
shell must be quoted. The -d option is used only in combination with the -f option, according to XPG3 and SVID2/SVID3.
-s Suppresses lines with no delimiter characters. Unless specified, lines with no delimiters are passed through untouched.
Either the -c or -f option must be specified.
Examples
Mapping of user IDs to names:
cut -d: -f1,5 /etc/passwd
To set name to the current login name for the csh shell:
set name=`who am i | cut -f1 -d" "`
To set name to the current login name for the sh, sh5, and ksh shells:
name=`who am i | cut -f1 -d" "`
Diagnostics
"line too long" A line can have no more than 511 characters or fields.
"bad list for c/f option"
Missing -c or -f option or incorrectly specified list. No error occurs if a line has fewer fields than the list calls
for.
"no fields" The list is empty.
See Alsogrep(1), paste(1)cut(1)