Hello Everyone!
I am new on this forum and this is my first post. I wish to apologize for my, not canonical, English.
I would like to solve this problem but I have no clue of how do it!I will be grateful if someone could help me!
I have a table like this:
Each row is a gene and each column a transcription factor.The number in the intersection means if the TF there is, there is not, is upregulated, is downregulated.
Now what I would like to obtain is something like that:
Adding at each gene the TF and the relative number!I get crazy!
I really hope that someone could help me!
Thanks a lot
Giuliano
Last edited by joeyg; 11-29-2012 at 02:29 PM..
Reason: corrected spelling
I have a text file in unix with a layout like this
Column 1 - 1-12
Column 2 - 13-39
Column 3 - 40-58
Column 4 - 59-85
Column 5 - 86-120
Columbn 6 - 121-131
The file also has a header on the first 6 lines of each page. Each page is 51 lines long. So I want to remove the header from each... (30 Replies)
Hi All,
I am new to UNIX can you please help me to sort a file with different columns
my file looks like this
$ cat gaut.txt
UID PID PPID PGID SID C STIME TTY TIME CMD
liveuser 3008 2892 3008 3008 0 11:58 ? 00:00:00 gnome-session
liveuser 3019 1 ... (8 Replies)
Hi,
I found the following awk script to transpose multiple (3) columns to multiple rows:
#===
BEGIN {FS=","}
{
for (i=1;i<=NF;i++)
{
arr=$i;
if(nf<= NF)
nf=NF;
}
nr=NR
}
END {
for(i=1;i<=nf;i++)
{ (8 Replies)
Looking to join three files and then transpose some columns from multiple rows into a single row.
File Info:
FIELD TERMINATED BY '^'
ENCLOSED BY '~'
LINE TERMINATED BY '\r\n'
FIRST FILE (FOOD_DES.txt)
~01001~^~0100~^~Butter, salted~^~BUTTER,WITH... (2 Replies)
Hi All,
I'm looking for a script which can transpose field names from column headers to values in one column.
for example, the input is:
IDa;IDb;IDc;PARAM1;PARAM2;PARAM3;
a;b;c;p1val;p2val;p3val;
d;e;f;p4val;p5val;p6val;
g;h;i;p7val;p8val;p9val;
into the output like this:
... (6 Replies)
Hi
I have 5 columns like this
a b c d e
f g h i j
k l m n o
From 2nd column till the 5th column of every record, I would like to transpose them as rows, so my output file contains only one row
a
b
c
d
e
f
g
h
i
j (9 Replies)
hello gurus,
Somebody must have done this before, I couldn't find anything. Please redirect me if this was solved before, and if not please help.
To the problem now, I have multiple csv files (about 1000) which I need to concatenate by column header. The final file should have a superset... (4 Replies)
Gents,
Transpose from row to column, taking in consideration the first column, which contends the date.
Input file
72918,111000009,111000009,111000009,111000009,111000009,111000009,111000009,111000009,111000009
72918,2356,2357,2358,2359,2360,2361,2362,2363,2364
72918,0,0,0,0,0,0,0,0,0... (12 Replies)
Discussion started by: jiam912
12 Replies
LEARN ABOUT DEBIAN
bio::updateableseqi
Bio::UpdateableSeqI(3pm) User Contributed Perl Documentation Bio::UpdateableSeqI(3pm)NAME
Bio::UpdateableSeqI - Descendant of Bio::SeqI that allows updates
SYNOPSIS
See Bio::SeqI for most of the documentation. See the documentation of the methods for further details.
DESCRIPTION
Bio::UpdateableSeqI is an interface for Sequence objects which are expected to allow users to perform basic editing functions
(update/delete) on their component SeqFeatures.
FEEDBACK
Mailing Lists
User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the
Bioperl mailing list. Your participation is much appreciated.
bioperl-l@bioperl.org - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Support
Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address
it. Please include a thorough description of the problem with code and data examples if at all possible.
Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the
web:
https://redmine.open-bio.org/projects/bioperl/
AUTHOR - David Block
Email dblock@gene.pbi.nrc.ca
CONTRIBUTORS
Ewan Birney forced me to this...
APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
delete_feature
Title : delete_feature
Usage : my $orphanlist=$self->delete_feature($feature,$transcript,$gene);
Function: deletes the specified $feature from the given transcript, if $transcript is sent and exists and $feature is a feature of $transcript,
or from $gene if the $feature is a feature of $gene, or from $self if $transcript and $gene are not sent. Keeps track of the features
of the $gene object that may be left as orphans and returns them as a listref.
Example : I want to delete transcript 'abc' of gene 'def', with three exons, leaving only transcript 'ghi' with two exons.
This will leave exons 1 and 3 part of 'ghi', but exon 2 will become an orphan.
my $orphanlist=$seq->delete_feature($transcript{'abc'},undef,$gene{'def'});
$orphanlist is a reference to a list containing $exon{'2'};
Returns : a listref of orphaned features after the deletion of $feature (optional)
Args : $feature - the feature to be deleted
$transcript - the transcript containing the $feature, so that a $feature can be removed from only one transcript when there are multiple
transcripts in a gene.
$gene - the gene containing the $transcript and/or the $feature
perl v5.14.2 2012-03-02 Bio::UpdateableSeqI(3pm)