I have a file some thing like this:
I want to keep the information related to each entry column wise. each entry starts with GN (gene name) and ends with Function
hi,
Apologies if this has been covered.
I have requirement where i have to convert a single column into multiple column.
My data will be like this -
2
3
4
5
6
Output required -
2 3 4 5 6 (1 Reply)
Hi Gurus,
How to convert rows in to columns using linux shell scripting
Input is like (sample.txt)
ABC
DEF
GHI
JKL
MNO
PQR
STU
VWX
YZA
BCD
output should be (sampleoutput.csv)
ABC,DEF,GHI,JKL,MNO
PQR,STU,VWX,YZA,BCD (2 Replies)
Hi I have a matrix with n rows and m columns like below example. i want to extract all the pairs with values <200.
Input
A B C D
A 100 206 51 300
B 206 100 72 48
C 351 22 100 198
D 13 989 150 100
Output format
A,A:200
A,C:51
B,B:100... (2 Replies)
I am looking to print the data in columns and after every 3 words it should be a new row.
cat example.out | awk 'END { for (i = 0; ++i < m;) print _;print _ }{ _ = _ x ? _ OFS $1 : $1}' m=1| grep -i INNER
I am looking to print in a new line after every 3 words.
... (2 Replies)
Hi Friends,
Hope all is well.
I have an input file like this
a gene1 10
b gene1 2
c gene2 20
c gene3 10
d gene4 5
e gene5 6
Steps to reach output.
1. Print unique values of column1 as column of the matrix, which will be
a
b
c (5 Replies)
hi folks,
I have a sample data like what is shown below:
1,ID=1000
1,Org=CedarparkHospital
1,cn=john
1,sn=doe
1,uid=User001
2,uid=User002
2,ID=2000
2,cn=steve
2,sn=jobs
2,Org=Providence
I would like to convert it into the below format:
1,1000,CedarparkHospital,john,doe,User001... (11 Replies)
Team,
I am having requirement to convert rows to columns
Input is:
key ,count, id1, pulse1, id2, pulse2 ,id3, pulse3
12, 2 , 14 , 56 , 15, 65
13, 3, 12, 32, 14, 23, 18, 54
22, 1 , 32, 42
Expected Out put:
key, id,pulse
12, 14, 56
12, 15, 65
13 ,12, 32
13, 14 ,23
13, 18 ,54
22 ,32,... (3 Replies)
Discussion started by: syam1406
3 Replies
LEARN ABOUT DEBIAN
probalign
PROBALIGN(1) User Commands PROBALIGN(1)NAME
probalign - Align sequences in MFAFILE(s) and print result to standard output
DESCRIPTION
PROBALIGN Version 1.4 (Nov 2010) aligns multiple protein sequences and prints to the standard output. Written by Satish Chikkagoudar and
Usman Roshan using code from PROBCONS version 1.1 (written by Chuong Do) and based upon probA (written by Ulrike Muckstein).
PROBALIGN 1.4 comes with ABSOLUTELY NO WARRANTY. This is free software, and you are welcome to redistribute it under certain conditions.
See the README file for details.
Usage:
probalign [OPTION]... [MFAFILE]...
Description:
Align sequences in MFAFILE(s) and print result to standard output
-clustalw
use CLUSTALW output format instead of MFA
-v, --verbose
report progress while aligning (default: off)
-a, --alignment-order
print sequences in alignment order rather than input order (default: off)
-T, -temperature
Sets the thermodynamic temperature parameter
(default: 5 (for protein data mode), 1 ( for nucleotide data mode)).
-score_matrix, --score_matrix
Sets the type of scoring matrix used to calculate the posterior probabilities (default: gonnet_160, representing gonnet 160, refer
README for details)
-go, --gap-open
This option can be used to specify the gap open parameter. The default for Gonnet 160 (protein) is 22 and nucleotide (simple matrix)
is 4.
-ge, --gap-extension
This option can be used to specify the gap extension parameter. The default for Gonnet 160 (protein) is 1 and nucleotide (simple
matrix) is 0.25.
-nuc
Specify this option to indicate that inputted sequences are nucleotide sequences
-prot
Specify this option to indicate that inputted sequences are protein sequences [DEFAULT]
-showPP
Outputs the posterior probabilities of alignment columns as a new sequence named Posterior Probabilities (The probability values are
scaled to be between integers between 0 and 9).
probalign 1.4 May 2011 PROBALIGN(1)