Forum: Bioinformatics
10-18-2013, 12:19 AM
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Replies: 4
Views: 1,329
There is a tool from picard ...
There is a tool from picard
http://picard.sourceforge.net/explain-flags.html
use the number at second column (e.g. for the first read: 141 )
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Forum: Bioinformatics
10-16-2013, 01:47 AM
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Replies: 6
Views: 3,031
I don't think you need to install Galaxy.
...
I don't think you need to install Galaxy.
A user only needs to write a very small configuration file, telling the program which samples to look at and how they should be combined with different...
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Forum: Bioinformatics
10-15-2013, 07:57 AM
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Replies: 6
Views: 3,031
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Forum: Genomic Resequencing
10-09-2013, 02:10 AM
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Replies: 8
Views: 3,443
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Forum: Genomic Resequencing
10-09-2013, 02:09 AM
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Replies: 8
Views: 3,443
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Forum: Bioinformatics
10-08-2013, 01:10 PM
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Replies: 12
Views: 12,986
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Forum: Bioinformatics
10-08-2013, 12:09 PM
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Replies: 12
Views: 12,986
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Forum: Bioinformatics
10-08-2013, 07:58 AM
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Replies: 12
Views: 12,986
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Forum: Bioinformatics
10-05-2013, 04:46 AM
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Replies: 20
Views: 7,159
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Forum: Bioinformatics
10-05-2013, 01:27 AM
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Replies: 8
Views: 4,738
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Forum: Bioinformatics
10-04-2013, 06:55 AM
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Replies: 12
Views: 3,665
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Forum: Bioinformatics
10-04-2013, 05:44 AM
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Replies: 12
Views: 3,665
If I Just run
${path_to_bwa}/bwa
I get...
If I Just run
${path_to_bwa}/bwa
I get following message :
----------------------------------
Program: bwa (alignment via Burrows-Wheeler transformation)
Version: 0.7.5a-r405
Contact: Heng...
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Forum: Bioinformatics
10-04-2013, 04:09 AM
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Replies: 12
Views: 3,665
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Forum: Bioinformatics
10-04-2013, 02:20 AM
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Replies: 8
Views: 8,684
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Forum: Bioinformatics
10-03-2013, 12:40 PM
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Replies: 2
Views: 1,842
Yes, Tao has already confirmed this: ...
Yes, Tao has already confirmed this:
https://groups.google.com/forum/#!searchin/macs-announcement/paired$20end|sort:date/macs-announcement/J9vbZz4s3BM/KKVWRXl24CYJ
----By Tao:
Both MACS14 and...
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Forum: Bioinformatics
09-30-2013, 06:18 AM
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Replies: 3
Views: 4,714
"GATK accept interval files for processing...
"GATK accept interval files for processing subsets of the genome in Picard-style interval lists"
http://www.broadinstitute.org/gatk/guide/article?id=1204
I think you just need to change your bed...
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Forum: RNA Sequencing
08-13-2012, 02:25 AM
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Replies: 6
Views: 9,975
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Forum: General
06-25-2012, 12:43 AM
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Replies: 1
Views: 2,390
Hi,
Please read this ...
Hi,
Please read this
http://ethanomics.wordpress.com/2011/08/07/how-to-compare-transcription-factor-binding-between-two-chip-seq-samples/
You may also need to look at DiffBind from...
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Forum: Bioinformatics
06-16-2012, 01:45 AM
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Replies: 5
Views: 1,801
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Forum: RNA Sequencing
05-23-2012, 12:15 AM
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Replies: 16
Views: 5,508
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Forum: RNA Sequencing
05-22-2012, 02:24 PM
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Replies: 16
Views: 5,508
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Forum: Bioinformatics
02-08-2012, 08:51 AM
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Replies: 7
Views: 2,925
please see this ...
please see this
https://groups.google.com/group/macs-announcement/browse_thread/thread/9e401eeced7ba235/fd65a20b720a437c?lnk=gst&q=to-small#fd65a20b720a437c
"....
By default, MACS will now scale...
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Forum: Bioinformatics
02-08-2012, 06:45 AM
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Replies: 7
Views: 2,925
in README of MACS1.4
--to-small ...
in README of MACS1.4
--to-small When set, scale the larger dataset down to the smaller
dataset, by default, the smaller dataset will be
...
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Forum: Bioinformatics
02-02-2012, 12:48 AM
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Replies: 7
Views: 2,032
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Forum: Bioinformatics
01-31-2012, 03:55 AM
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Replies: 4
Views: 6,546
I agree.
see this...
I agree.
see this http://seqanswers.com/forums/showthread.php?t=6854&highlight=duplicates
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