Forum: RNA Sequencing
11-14-2013, 08:21 AM
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Replies: 5
Views: 1,954
Hi,
I grep the pathogen sequence from the...
Hi,
I grep the pathogen sequence from the fastq file.
All the matched seuqence is 50bp.
Before the space is the end of my pathogen transcript. Any nucleotides following it, I don't know what...
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Forum: Bioinformatics
11-13-2013, 08:02 PM
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Replies: 1
Views: 1,690
Hello,
I am trying to make an annotation...
Hello,
I am trying to make an annotation files for the transportable elements in drosophila, which is not included in the normal annotation file. Can you give me some detail instruction as to how...
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Forum: Bioinformatics
11-13-2013, 07:56 PM
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Replies: 2
Views: 1,130
construct annotation files
Hi all,
I am interested in checking the non-coding rna(for example, transposons) expression levels.However, there is no annotation file (GTF for example). Does anyone know how to make the file in...
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Forum: RNA Sequencing
11-13-2013, 02:32 PM
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Replies: 5
Views: 1,954
Hi Gringer,
Thanks for the quick reply. I...
Hi Gringer,
Thanks for the quick reply. I got the data after they are removed off the index sequences. All the fragments that I get are of equal length. I just don't why there are still...
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Forum: RNA Sequencing
11-13-2013, 12:47 PM
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Replies: 5
Views: 1,954
extra sequence following transcript in RNA-seq ?
Hi,
I did a dual-seq with pathogen and host. I found more nucleotides after the total mRNA transcript(as annotation) from the pathogen. For each sequence that mapped to the pathogen transcript in...
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Forum: Bioinformatics
06-03-2013, 11:04 AM
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Replies: 0
Views: 1,661
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Forum: Bioinformatics
05-30-2013, 09:57 AM
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Replies: 123
Views: 50,697
Hi,
Does deseq development version better...
Hi,
Does deseq development version better than the release version? The manual that i found on Bioconductor seems to aim for the development version since the "normalize=True" does not work. I am...
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Forum: Bioinformatics
05-30-2013, 03:29 AM
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Replies: 123
Views: 50,697
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Forum: Bioinformatics
05-29-2013, 06:58 PM
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Replies: 1
Views: 892
ht-seq count
Hi,
I am using htseq-count to count the reads before using DeSeq.
I am not sure whether I need to use the option -m nonempty or union.
Does this affect the result of Deseq analysis?
...
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Forum: Bioinformatics
05-29-2013, 06:35 PM
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Replies: 123
Views: 50,697
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Forum: Bioinformatics
05-29-2013, 06:27 PM
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Replies: 123
Views: 50,697
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