I have one file of numbers
4
5
2
...
And another file of strings
aaaaa bbbbb
ccccc ddddd
eeeee ffffff
...
I'd like to print the stings from each line in reverse order with some decoration the number of times listed in the first file
such as:
Yeah bbbbb aaaaa
Yeah bbbbb aaaaa (5 Replies)
I've created an awk script that handles a varying number of search strings handed to it as command line parameters ($1 $2 etc). There may be 1, or 2 or 3 or more. A simplified version of the script is:
awk -v TYP="$1 $2 $3 $4 $5 $6" '
BEGIN {
CTYP = split (TYP,TYPP," ")
}
... (2 Replies)
Hi all
I have a variable called "variable" and is of the form
variable ="AAA BBB CCC DDD" {basically it has values separated by spaces}
What is the simplest way to check if "variable" has more that one value in its list?
Thanks. (9 Replies)
Hello,
I wrote a script that does lot of things, and I would like to change the format of a number but without printing it now (so I don't want to use printf as it will print the value immediately).
Schematically here is what I have:
awk 'BEGIN{number=0.01234567}
$1==$2{$3=number}... (5 Replies)
People, I need your help with making a script which will
1. take as an input the number of lines, smth like this:
((RUBROBACTER_1_PE1288
(((SALINISPORA_1_PE1863
SALINISPORA_1_PE1828)100
((NOCARDIOIDES_2_PE2419
PROPIONIBACTERIUM_1_PE1395)96
((((((((CORYNEBACTERIUM_1_PE1119... (3 Replies)
Hi,
I have the following text in a file:
ISA*00* *00* *ZZ*ENS_EDI *ZZ*GATE0215 *110106*2244*U*00401*006224402*1*P*>~
GS*HP*ENS_EDI*GATE0215*20110106*2244*6224402*X*004010X091A1~
ST*835*00006~... (2 Replies)
Hello all,
I have a file with column header which looks like this.
C1 C2 C3
A A G
T T A
G C CI want to make columnwise (and bitwise) comparison of strings and calculate the number of matches.
So the number of matches between C1 and C2 will be comparing ATG and ATC.
Here there are... (5 Replies)
Hi,
I have a text file as shown below. I would like to count the unique number of connections of each person in the first and second column. Third column is the ID numbers of first column persons and fourth column is the ID numbers of second column persons.
susan ali 156 294... (7 Replies)
I have 500 text files in a folder. The data of the text files are shown below.
USA Germany 23-12
USA Germany 23-12
USA Germany 23-12
France Germany 15-12
France Germany 15-12
France Italy 25-50
China China 30-32
China China 30-32
I would... (1 Reply)
Discussion started by: sahith
1 Replies
LEARN ABOUT DEBIAN
bp_search2alnblocks
BP_SEARCH2ALNBLOCKS(1p) User Contributed Perl Documentation BP_SEARCH2ALNBLOCKS(1p)NAME
search2alnblocks - Turn SearchIO parseable reports(s) into a set of aligned blocks
SYNOPSIS
search2alnblocks --minid PERCENTID --minlen LEN --minevalue EVALUE file1.
blast file2.blast ...> out.fas
DESCRIPTION
This script will parse and filter BLAST (or other formats Bio::SearchIO can parse) output and format the alignment as blocks of alignments
based on the HSPs. Note this can only work if the input file parsed contains the necessary.
Typically this can be used to turn BLAST output into a FASTA alignment format for input into the QRNA comparative gene finder for RNA genes
(E.Rivas).
OPTIONS --maxevalue Maximum E-value for an HSP
--minevalue Minimum E-value for an HSP
--minlen Minimum length of an HSP [default 0]
--maxid Maximum Percent Id [default 100]
(to help remove sequences which are really close)
--minid Minimum Percent Identity for an HSP [default 0]
-i/--input An optional input filename (expects input on STDIN by default)
-o/--output An optional output filename (exports to STDOUT by default)
-f/--format Specify a different Search Alignment format-
{fasta, axt, waba, blast, blastxml} are all permitted
although the format must have actual alignment
sequence for this script to work
See L<Bio::SearchIO> for more information.
-of/--outformat Output format for the alignment blocks, anything
L<Bio::AlignIO> supports.
-v/--verbose Turn on debugging
AUTHOR - Jason Stajich
Jason Stajich, jason-at-bioperl-dot-org.
perl v5.14.2 2012-03-02 BP_SEARCH2ALNBLOCKS(1p)