I would like to remove characters from column 7 so that from an input file looking like this:
>HWI-EAS422_12:4:1:69:89 GGTTTAAATATTGCACAAAAGGTATAGAGCGT U0 1 0 0 ref_chr8.fa 6527777 F DD
I get something like that in an output file:
... (13 Replies)
I have a large text-file with tab-delimited genetic data that looks like:
KSC112 KSC234 0 0 1 1 A G C T
I simply wan to delete the first column, but since the file has 600 000 columns, it is not possible with awk (seems to be limited at 32k columns).
Does anyone have an idea how to do this? (2 Replies)
I want to add a new column to a tab delimited text file. It will be the first column and it will just be 1's. How do I go about doing that? Thanks! (1 Reply)
Hi all,
I'm new to Unix and work primarily in bioinformatics. I am in need of a script which will allow me to replace "1" with "chr1" in only the first column of a file which looks like such:
1 10327 rs112750067 T C . PASS ASP;RSPOS=10327;... (4 Replies)
I have a file which looks like this:
73450 articles and news developmental psychology 2006-03-30 16:22:40 1 http://www.usnews.com
73450 articles and news developmental psychology 2006-03-30 16:22:40 2 http://www.apa.org
73450 articles and news developmental psychology 2006-03-30... (1 Reply)
I have a file having the following entries:
test1 test2 test3
11 22 33
22 44 66
99 99 44
---
I want to add a column so that the above file becomes:
test1 test2 test3 notest
11 22 33 *
22 44 66 *
99 99 44 *
---
Thanks (6 Replies)
I am fairly new to programming and trying to resolve this problem. I have the file like this.
CHROM POS REF ALT 10_sample.bam 11_sample.bam 12_sample.bam 13_sample.bam 14_sample.bam 15_sample.bam 16_sample.bam
tg93 77 T C T T T T T
tg93 79 ... (4 Replies)
Hi all ,
I have a file having 12 columns tab delimited .
I need to read this file and remove the column 3 and column 4 and insert a word in column 3 as "AVIALABLE "
Is there a way to do this . I am trying like below
Thanks
DJ
cat $FILENAME|awk -F"\t" '{ print $1 "\t... (3 Replies)
Hello Everyone..
I want to replace the retail col from FileI with cstp1 col from FileP if the strpno matches in both files
FileP.txt
... (2 Replies)
Discussion started by: YogeshG
2 Replies
LEARN ABOUT DEBIAN
gbp-pq
GBP-PQ(1) git-buildpackage Manual GBP-PQ(1)NAME
gbp-pq - Manage quilt patches on patch queue branches in git
SYNOPSIS
gbp-pq [ --verbose ] [ --color=[auto|on|off] ] [ --[no-]patch-numbers ] [ --topic=topic ] [ --time-machine=num ] drop | export | import |
rebase | switch
DESCRIPTION
gbp-pq helps one to manage quilt patches in Debian packages that are maintained with git-buildpackage. This is especially useful with pack-
ages using the 3.0 (quilt) source format. With gbp-pq you can maintain the quilt patches that should be applied to a package on a separate
branch called patch-queue branch. So if your Debian package lives on master the associated patch-queue branch will be called patch-
queue/master.
See <URL:https://honk.sigxcpu.org/piki/development/debian_packages_in_git/> for example workflows.
ACTIONS
import Create a patch queue branch from quilt patches in debian/patches/ that are listed in debian/patches/series.
export Export the patches on the patch-queue branch associated to the current branch into a quilt patch series in debian/patches/ and
update the series file.
rebase Switch to the patch-queue branch associated to the current branch and rebase it against the current branch.
drop Drop (delete) the patch queue associated to the current branch. So if you're on branch foo this would drop branch patch-queue/foo.
apply Add a single patch to the patch-queue similar to using git-am. Use --topic if you want the patch to appear in a separate subdir when
exporting the patch queue using export. This can be used to separate upstream pathes from debian specific patches.
switch Switch to the patch-queue branch if on the base branch and switch to base branch if on patch-queue branch.
OPTIONS --verbose
-v verbose execution
--color=[auto|on|off]
Whether to use colored output.
--[no-]patch-numbers
Whether the patch files should start with a number or not.
--topic=topic
Topic to use when importing a single patch
--time-machine=NUM
When importing a patch queue fails, go back commit by commit on the current branch to check if the patch-queue applies there. Do
this at most NUM times. This can be useful if the patch-queue doesn't apply to the current branch HEAD anymore, e.g. after import-
ing a new upstream version.
TAGS
When exporting patches from a patch-queue branch gbp-pq will look at the patch header for special tags it recognizes. All tags need to
start at the first column and require at least one whitespace after the colon.
Gbp-Pq-Topic: topic
Moves the patch into a subdir called topic when running
gbp-pq
export
. This allows for some structure below debian/patches.
SEE ALSO git-buildpackage(1), dpkg-source(1), quilt(1), gbp.conf(5)AUTHOR
Guido Guenther <agx@sigxcpu.org>
01 June 2012 GBP-PQ(1)