This file contains (528000 rows (SNPs)), in particular: 328 rows with BONF = "INF", and 1300 others rows with BONF < 0.05, the remaining SNPs present a higher BONF-value than 0.05.
My question is: 1300+328 = 1628 (huge) is really the number of SNPs declared significants (<0.05) ? is it normal to get this kind of file ?
Thanks for you
Moderator's Comments:
Please use CODE tags when displaying sample input, output, and code.
Last edited by Don Cragun; 06-12-2014 at 03:18 PM..
Reason: Change BOLD tags to CODE tags and add CODE tags for sample output.
I have a one line bat script run off a XP machine that tar's and compresses some files from a Sol 8 box. It goes something like this (a bit simplified)....
plink -pw <passwd> user@host "tar -cvf - -C / tmp/a_file | compress " > a_file.tar.Z
So this works....and it's worked many times. But now... (3 Replies)
Hi Gurus,
I am using the following code to parse the output of a file. This code basically parses the file and adds | at the end of each field. But I am getting it wrong in some cases. I have explained it below
#----- parse output file, get each field position, -----
#----- and construct... (13 Replies)
Hi,
How we can use use plink to access unix system using Dos.
Could someone send me the commands that can be use in Batch file to call unix system using plink utility.
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However, on one PC, I get the following error message:
"'D:\scripts\plink.exe' is not a Win32 Console... (1 Reply)
Hi,
When I run the following command in terminal it works. The string TEST is appended to a file silently.
echo TEST | tee -a file.txt &>/dev/null
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I run this file in terminal, ./shell1.sh.
However I... (1 Reply)
I'm trying to output the contents of the infile to the outfile using Append.
I will want to use append but the syntax doesn't seem to be working !
Input file (called a.txt) contains this:
a
a
a
b
b
b
I'm running shell script (called k.sh) from Unix command-line like this:
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I have a file named XXX_TEF_20120530234576.txt.pgp
I am creating a new file with the below syntax but looks it doesnt like the redirection
for file in XXX_TEF_20120530234576.txt.pgp ;do;
echo $file
cat $file | /usr/bin/gpg/ -d > echo $file | cut -f1,2 -d'.'
done;
What I want actually is... (6 Replies)
Hi Plink users,
I am very new in GWAS and decided to use PLINK for this. But I am struggling with file formats.
I have one exome data with 200000 SNPs in it. But it is in .txt format. But all the necessary fields are there in different columns.
Can you please suggest me how I can create the... (5 Replies)
Hi All,
Iam a newbie to the plink and need your assistance. I have referred some posts but it doesn't helps me much.
I have two steps to do.
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Hi,
I have run into a problem to which i can't seem to find any solution, posting here is my last resort.
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I am using plink to access my router and run a few configuration commands. When in enter configurations mode, instead of sending next command plink keeps on waiting for manual... (7 Replies)
Discussion started by: zaainabbas
7 Replies
LEARN ABOUT OPENSOLARIS
ppmtosixel
ppmtosixel(1) General Commands Manual ppmtosixel(1)NAME
ppmtosixel - convert a portable pixmap into DEC sixel format
SYNOPSIS
ppmtosixel [-raw] [-margin] [ppmfile]
DESCRIPTION
Reads a portable pixmap as input. Produces sixel commands (SIX) as output. The output is formatted for color printing, e.g. for a DEC
LJ250 color inkjet printer.
If RGB values from the PPM file do not have maxval=100, the RGB values are rescaled. A printer control header and a color assignment table
begin the SIX file. Image data is written in a compressed format by default. A printer control footer ends the image file.
OPTIONS -raw If specified, each pixel will be explicitly described in the image file. If -raw is not specified, output will default to com-
pressed format in which identical adjacent pixels are replaced by "repeat pixel" commands. A raw file is often an order of magni-
tude larger than a compressed file and prints much slower.
-margin
If -margin is not specified, the image will be start at the left margin (of the window, paper, or whatever). If -margin is speci-
fied, a 1.5 inch left margin will offset the image.
PRINTING
Generally, sixel files must reach the printer unfiltered. Use the lpr -x option or cat filename > /dev/tty0?.
BUGS
Upon rescaling, truncation of the least significant bits of RGB values may result in poor color conversion. If the original PPM maxval was
greater than 100, rescaling also reduces the image depth. While the actual RGB values from the ppm file are more or less retained, the
color palette of the LJ250 may not match the colors on your screen. This seems to be a printer limitation.
SEE ALSO ppm(5)AUTHOR
Copyright (C) 1991 by Rick Vinci.
26 April 1991 ppmtosixel(1)
06-12-2014
