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Search: Posts Made By: albrown415
Forum: Bioinformatics 09-23-2010, 01:54 PM
Replies: 1
Views: 1,633
Posted By albrown415
Bowtie for PowerMac

Hello,
I am hoping to run Bowtie on my PowerMac. Does anyone have a compiled version that they would be willing to share with me? I don't have developer tools or a compiler on my computer.
...
Forum: Bioinformatics 06-08-2010, 02:00 PM
Replies: 8
Views: 14,014
Posted By albrown415
Thanks. I got it working earlier but my post...

Thanks. I got it working earlier but my post didn't go through.

Thanks for your help.
Forum: Bioinformatics 06-08-2010, 12:53 PM
Replies: 8
Views: 14,014
Posted By albrown415
Actually I was able to get it working using the...

Actually I was able to get it working using the description on the following webpage:

http://www.mac-forums.com/forums/os-x-darwin-development/201788-setting-my-environmental-path.html

Hope...
Forum: Bioinformatics 06-08-2010, 12:36 PM
Replies: 8
Views: 14,014
Posted By albrown415
Thanks for the quick reply, however, I'm still...

Thanks for the quick reply, however, I'm still not sure how to change the path.

How do I locate the bashrc on my computer? Does Mac OS X have this file? I'm having trouble locating it.

To...
Forum: Bioinformatics 06-08-2010, 11:38 AM
Replies: 8
Views: 14,014
Posted By albrown415
how to place bowtie in "PATH" for use with TopHat

Hello,
I'm trying to get TopHat running but am getting the following error about not being able to find bowtie:

>>python tophat -r 20 test_ref reads_1.fq reads_2.fq

[Fri Jun 4 12:53:41 2010]...
Forum: Bioinformatics 06-04-2010, 01:59 PM
Replies: 36
Views: 18,970
Posted By albrown415
Thanks. That's great to know.

Thanks. That's great to know.
Forum: Bioinformatics 06-02-2010, 08:20 AM
Replies: 36
Views: 18,970
Posted By albrown415
You're right. This was a silly question. Most...

You're right. This was a silly question. Most people map the reads at this point and choose an alignment program that outputs the data into the proper format. I'm working to get Bowtie running on...
Forum: Bioinformatics 06-01-2010, 11:22 AM
Replies: 36
Views: 18,970
Posted By albrown415
FASTQ to SAM conversion

What is the best program to use for converting fastq (or eland extended) files to SAM format? Thanks!
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