sir that is excel file how can i post here?
however it is roughly like
Code:
sequence id extracted region small extracted region big upstream and downstream
gi|546669925|gb|AWWX01450616.1| CACCTTGATCTTGGACTTCTAGC "CCAGAGAAAAAAGAAGAGAAAAAAAATCACTTGGGGACATAGCAAGAAGGTGGCCATCCTCAAACCAAGG
AGAGAAGCCAGAAGAAACCAAACTTTCCAACACCTTGATCTTGGACTTCTAGCCTCCAGAACTGTGAGAA
AATAAATTTCTGTAGAGTCACCCAGTCTGTGGTATTTTGTTATGGCAGACCTAGCAGACTGATATGCTCC
TTAAGGCAAGA"
---------- Post updated at 03:30 AM ---------- Previous update was at 03:01 AM ----------
cragun sir, last entry yes i want to generate 5 set of output correspond to each gi|546669842|gb|AWWX01450698.1| entry. though it is occurring multiple times but positions are different so there should be 5 lines of result in the result file correspond to gi|546669842|gb|AWWX01450698.1| entry.
and last entry is there in file1 see entry no 4.
---------- Post updated at 04:27 AM ---------- Previous update was at 03:30 AM ----------
even now any problem exists sir?
---------- Post updated 08-07-15 at 12:23 AM ---------- Previous update was 08-06-15 at 04:27 AM ----------
Hi,
I'm working hard on SQL and I came across a hurdle I'm hoping you can help me out with.
I have two tables
table1
headers: chrom start end name score strand
11 9720685 9720721 U0 0 +
21 9721043 9721079 U0 0 -
1 9721093 9721129 U0 0 +
20 ... (2 Replies)
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)
Hi everyone,
I have a large text file containing DNA sequences in fasta format as follows:
>someseq
GAACTTGAGATCCGGGGAGCAGTGGATCTC
CACCAGCGGCCAGAACTGGTGCACCTCCAG
GCCAGCCTCGTCCTGCGTGTC
>another seq
GGCATTTTTGTGTAATTTTTGGCTGGATGAGGT
GACATTTTCATTACTACCATTTTGGAGTACA
>seq3450... (4 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)
Hi all,
I have a file like this
ID 3BP5L_HUMAN Reviewed; 393 AA.
AC Q7L8J4; Q96FI5; Q9BQH8; Q9C0E3;
DT 05-FEB-2008, integrated into UniProtKB/Swiss-Prot.
DT 05-JUL-2004, sequence version 1.
DT 05-SEP-2012, entry version 71.
FT COILED 59 140 ... (1 Reply)
FILE_ID extraction from file name and save it in CSV file after looping through each folders
My files are located in UNIX Server, i want to extract file_id and file_name from each file .and save it in a CSV file. How do I do that?
I have folders in unix environment, directory structure is... (15 Replies)
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)
Old skool UNIX and Linux geek here, but newbie to the world of DNS and bind. I've recently been tasked with replacing our DNS infrastructure, currently on Windows, with a RHEL based solution. And I assume that means using bind, which I've not used before. Here's my question:
Suppose our company... (3 Replies)
HI,
I have a Complete genome fasta file and I have list of sub sequence regions
in the format as :
4353..5633
6795..9354
1034..14456
I want a script which can mask these region in a single complete genome fasta file with the alphabet N
kindly help (2 Replies)
i want to extract specific region of interest from big file. i have only start position, end position and seq id, see my query is:
I have file1 is this
>GL3482.1
GAACTTGAGATCCGGGGA
GCAGTGGATCTCCACCAG
CGGCCAGAACTGGTGCAC
CTCCAGGCCAGCCTCGTC
CTGCGTGTC
>GL3550.1... (14 Replies)
Discussion started by: harpreetmanku04
14 Replies
LEARN ABOUT DEBIAN
combine
COMBINE(1)COMBINE(1)NAME
combine - combine sets of lines from two files using boolean operations
SYNOPSIS
combine file1 and file2
combine file1 not file2
combine file1 or file2
combine file1 xor file2
_ file1 and file2 _
_ file1 not file2 _
_ file1 or file2 _
_ file1 xor file2 _
DESCRIPTION
combine combines the lines in two files. Depending on the boolean operation specified, the contents will be combined in different ways:
and Outputs lines that are in file1 if they are also present in file2.
not Outputs lines that are in file1 but not in file2.
or Outputs lines that are in file1 or file2.
xor Outputs lines that are in either file1 or file2, but not in both files.
"-" can be specified for either file to read stdin for that file.
The input files need not be sorted, and the lines are output in the order they occur in file1 (followed by the order they occur in file2
for the two "or" operations). Bear in mind that this means that the operations are not commutative; "a and b" will not necessarily be the
same as "b and a". To obtain commutative behavior sort and uniq the result.
Note that this program can be installed as "_" to allow for the syntactic sugar shown in the latter half of the synopsis (similar to the
test/[ command). It is not currently installed as "_" by default, but you can alias it to that if you like.
SEE ALSO join(1)AUTHOR
Copyright 2006 by Joey Hess <joey@kitenet.net>
Licensed under the GNU GPL.
moreutils 2012-04-09 COMBINE(1)
08-07-2015
