Forum: Bioinformatics
07-20-2012, 04:21 PM
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Replies: 1
Views: 1,909
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Forum: Bioinformatics
07-16-2012, 12:20 PM
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Replies: 0
Views: 1,915
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Forum: General
08-16-2011, 10:52 AM
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Replies: 17
Views: 16,028
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Forum: General
08-16-2011, 07:33 AM
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Replies: 17
Views: 16,028
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Forum: General
08-15-2011, 10:17 AM
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Replies: 17
Views: 16,028
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Forum: General
11-26-2009, 08:10 AM
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Replies: 9
Views: 25,097
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Forum: Bioinformatics
11-13-2009, 12:40 PM
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Replies: 1
Views: 2,186
gap penalty in BWA
Hi,
I have short question about gap penalty in BWA. The manual said that the gap open penalty is 11 and gap extension penalty is 4. Does the first gap position will be charged 11 or 15?
Thank you
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Forum: Bioinformatics
11-08-2009, 07:55 PM
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Replies: 18
Views: 14,860
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Forum: Bioinformatics
11-08-2009, 07:27 PM
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Replies: 18
Views: 14,860
I use the import command to make BAM file. ...
I use the import command to make BAM file.
samtools import <in.ref_list> <in.sam> <out.bam>
Do I have to use specific command to install the SAM program or just put the program folder on the...
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Forum: Bioinformatics
11-08-2009, 07:14 PM
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Replies: 18
Views: 14,860
Thank you. I use SUN cluster computer. I have...
Thank you. I use SUN cluster computer. I have already copy whole folder of SAM version 0.1.6 to my working directory. However, it still doesn't work. I'm not sure which one is the install directory.
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Forum: Bioinformatics
11-08-2009, 05:35 PM
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Replies: 18
Views: 14,860
Install SAM tool
Are there anyone know how to install SAM tool? I read in the SAM document and it didn't say anything about that. Thank you.
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Forum: Bioinformatics
11-08-2009, 07:54 AM
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Replies: 2
Views: 1,333
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Forum: Bioinformatics
11-07-2009, 05:06 PM
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Replies: 2
Views: 1,333
BWA input problem
Hi,
I am a new user for BWA and I have problem with input file. I saw in the manual that I need to put arguement in <out.sai>in aln step and <in.sai> in samse step. I cannot distinguish between...
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