01-19-2009
Thanks summer_cherry. Order is not an issue.
10 More Discussions You Might Find Interesting
1. Shell Programming and Scripting
With the help of this forum, I have a script with the following output:
chr7 27104483 27105154
chr7 27106872 27110789
chr7 27111956 27112830
chr7 27114388 27125180
chr7 27126966 27131260
chr7 27135440 27137796
which was created by the following script:
awk '1 == NR || $NF >= 1000 {... (6 Replies)
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2. Solaris
Pre: no gpasswd/adduser
there is just usermod can be used, also there is no -a option for usermod.
How should I add a user into a group? (4 Replies)
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3. Shell Programming and Scripting
I am having 4 field in a file
name age date status
i want to update or rewrite a value of status with another value
how it can be done
i used awk & sed but it shows result but not updating in original file
help me out...
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4. Shell Programming and Scripting
Hi All ,
Kindly help me with this soln
awk '{printf "%s %7s \n", $1,$c}' infile
where
value of variable c I am externally giving input
But executing the above command shows all the columns of infile where as I want only 1st column of infile and 2nd column should print value c (8 Replies)
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5. Ubuntu
Hi All
I need to add a column on my existing data file. I know similar posts are there but none of them were meeting my requirement. My input is
1.20 3.44 4.88
5.11 4.99 3.22
1.89 3.89 2.90
Desired output
1 1.20 3.44 4.88
2 5.11 4.99 3.22
3 1.89 3.89 2.90
I will... (2 Replies)
Discussion started by: mahbub03
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6. Shell Programming and Scripting
I have two files which has one column comman in them.
The two files has exact same number of rows in the same sequence.
I want to add the second column of Users_detail_servicesonly.txt as last column in the existing file.
1) Users_detail_complete.txt
V0135 Memb Info ... (4 Replies)
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7. Shell Programming and Scripting
Hi All,
I have a file with 3 millions records in which 3rd column is same throughout say its value is 0 throughout.for example:
Col1 Col2 Col3 Col4
A 1 0 5
B 2 0 6
C 3 0 7
D 4 0 9
I want my output as :
Col1 Col2 Col3 Col4
A 1 ... (4 Replies)
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8. Shell Programming and Scripting
Input File 1
cat S1.txt
MI0043 2731 miR-1
Input File 2
cat S4.txt
MI006 310 CiR-1
MI057 10 CiR-24
MI750 5 CiR-24
Desired Output File 1
cat S1.txt.out
MI0043 2731 miR-1 S1.txt
Desired Output File 2
cat S4.txt.out
MI006 310 CiR-1 S4.txt (3 Replies)
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9. Shell Programming and Scripting
Good evening
I have the below requirements, as I am not an experts in Linux/Unix and am looking for your ideas how I can do this.
I have file called file1 and file2.
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10. Shell Programming and Scripting
Hi ,
I want to add a new column 'current_time stamp' in my existing csv file with current time stamp for all the records.I tried something this but this is printing 0 with date & time and printed date one line above header.Please help
awk -F "," 'BEGIN{ OFS="," } {$6=system("date... (5 Replies)
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LEARN ABOUT DEBIAN
alien_hunter
ALIEN_HUNTER(1) User Commands ALIEN_HUNTER(1)
NAME
alien_hunter - Interpolated Variable Order Motifs for identification of horizontally acquired DNA
SYNOPSIS
alien_hunter <sequence.file> <output.file> [Options]
DESCRIPTION
Alien_hunter is an application for the prediction of putative Horizontal Gene Transfer (HGT) events with the implementation of Interpolated
Variable Order Motifs (IVOMs). An IVOM approach exploits compositional biases using variable order motif distributions and captures more
reliably the local composition of a sequence compared to fixed-order methods. Optionally the predictions can be parsed into a 2-state 2nd
order Hidden Markov Model (HMM), in a change-point detection framework, to optimize the localization of the boundaries of the predicted
regions. The predictions (embl format) can be automatically loaded into Artemis genome viewer freely available at:
http://www.sanger.ac.uk/Software/Artemis/.
INPUT: raw genomic sequence PREDICTION: HGT regions based on Interpolated Variable Order Motifs (IVOMs) arguments:
<sequence.file>
raw genomic sequence
<output.file>
filename for output data
Optional arguments:
-a to load the prediction file into Artemis
-c optimize predicted boundaries with a change-point detection 2 state 2nd order HMM
Output files:
<output.file>
predictions (tab file) in embl format
<output.file>.opt
optimized (HMM) predictions (tab file) in embl format
<output.file>.plot
predictions in Artemis User Plot format to be loaded manually using Graph -> Add User Plot...
<output.file>.opt.plot
optimized (HMM) predictions in Artemis User Plot format to be loaded manually using Graph -> Add User Plot...
<output.file>.sco
the scores over all the sliding windows - for score distribution check
Note: Predictions that overlap with rRNA operon are mentioned in the note qualifier
SEE ALSO
The manuscript describing the alien_hunter algorithm is available from Bioinformatics: Interpolated variable order motifs for identifica-
tion of horizontally acquired DNA: revisiting the Salmonella pathogenicity islands. Vernikos GS, Parkhill J Bioinformatics. 2006;. PMID:
16837528
AUTHOR
This manual page was written by Andreas Tille <tille@debian.com> for the Debian(TM) system (but may be used by others). This man page is
released under the same conditions as the software, that is GPL.
alien_hunter 1.7 October 2009 ALIEN_HUNTER(1)