Forum: Bioinformatics
03-15-2012, 12:57 PM
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Replies: 4
Views: 2,108
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Forum: General
03-15-2012, 12:47 PM
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Replies: 2
Views: 1,497
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Forum: General
03-15-2012, 12:28 PM
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Replies: 2
Views: 1,497
Problem running cb_local; maybe manifest file?
Hi,
I am trying to run crossbow against a local fastq file that I have. I downloaded the hg18.jar file and I believe everything (or most everything) is configured correctly.
The command I execute...
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Forum: Bioinformatics
01-26-2011, 01:43 PM
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Replies: 0
Views: 2,133
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Forum: Bioinformatics
07-27-2010, 01:10 PM
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Replies: 514
Views: 225,118
Regarding the disparate -m1 vs -a
Thanks for a reply,
I posted the input reads so that someone could run bowtie using that input against human chromosome #1 and see the results for themselves, as it is so small and easily done. ...
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Forum: Bioinformatics
07-27-2010, 07:05 AM
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Replies: 514
Views: 225,118
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Forum: Bioinformatics
07-20-2010, 12:30 PM
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Replies: 514
Views: 225,118
More on disparate results between -a vs -m1
Hi again,
Have not gotten any reply to my posting, so I thought I'd make it a little easier for you. I am pasting the --12, 10-line input file and the two commands which quickly and easily...
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Forum: Bioinformatics
07-15-2010, 01:28 PM
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Replies: 514
Views: 225,118
Disparate results between -m1 and -a
Hi,
I have some paired end data generated from human chromosome 1. Pairs are between 700 and 1300 bases apart. I have cut 10 pairs from the overall data to run some tests to try and understand...
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Forum: Bioinformatics
11-03-2009, 10:44 AM
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Replies: 3
Views: 8,694
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Forum: Bioinformatics
10-29-2009, 11:34 AM
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Replies: 292
Views: 161,384
Hi,
samtools-0.1.6_x86_64-linux; precompiled...
Hi,
samtools-0.1.6_x86_64-linux; precompiled version downloaded today
$ bowtie --version
bowtie version 0.11.3
64-bit
Built on myserver
Fri Oct 23 13:27:05 MDT 2009
Compiler: gcc version...
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Forum: Bioinformatics
10-27-2009, 09:24 AM
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Replies: 514
Views: 225,118
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Forum: Bioinformatics
10-23-2009, 08:18 AM
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Replies: 514
Views: 225,118
Hi Ben,
I just wanted to follow up on my...
Hi Ben,
I just wanted to follow up on my original question regarding using -v n, where n>3 which I posted 10/16/09. I am satisfied with your solution. In fact I find that the results of using -v...
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Forum: Bioinformatics
10-16-2009, 07:08 AM
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Replies: 514
Views: 225,118
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Forum: Bioinformatics
10-15-2009, 12:19 PM
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Replies: 514
Views: 225,118
Polonator data with gaps
Hi Ben,
I have some output from a Polonator. This is paired-end data with gaps. For instance, the raw data is 26 base pairs. The researcher asserts this to be 2x15mers with a gap of two...
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