Forum: Bioinformatics
03-28-2011, 12:02 PM
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Replies: 65
Views: 35,845
Thanks!!
Thanks for your help Anne-Mette!!
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Forum: Bioinformatics
02-18-2010, 12:23 AM
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Replies: 2
Views: 2,410
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Forum: Bioinformatics
12-03-2009, 04:12 AM
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Replies: 2
Views: 2,023
Hi Kevin,
We are about to release a...
Hi Kevin,
We are about to release a beta-version of our new de novo assembler which is able to assemble large amounts of data on modest hardware. Data can be combined from various platforms and...
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Forum: Bioinformatics
11-04-2009, 12:53 AM
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Replies: 25
Views: 10,998
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Forum: Bioinformatics
11-03-2009, 01:56 AM
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Replies: 25
Views: 10,998
CLC Genomics Machine
Hi drio,
The machine is actually a product that we sell bundled with a full software solution. You can read the full specs of hardware and software at http://www.clcmachine.com/
If you write an...
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Forum: Bioinformatics
11-02-2009, 06:14 AM
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Replies: 25
Views: 10,998
Hi Najim,
Due to the large file sizes there...
Hi Najim,
Due to the large file sizes there is a lot of IO going on in NGS bioinformatics analysis. For this reason it is a good idea to purchase a machine with fast discs.
For inspiration, you...
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Forum: Bioinformatics
07-08-2009, 02:29 AM
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Replies: 33
Views: 17,544
454 mapping benchmark
Some benchmarks of how the CLC bio assembler maps 454 reads can be found in the white paper at http://www.clcbio.com/files/whitepapers/white_paper_on_reference_assembly_on_the_CLC_NGS_Cell.pdf
...
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Forum: Bioinformatics
06-23-2009, 01:34 AM
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Replies: 65
Views: 35,845
To Lesley
Thanks for the info Lesley.
Do you happen to have a sample of some tagged Illumina data that I can get?
I basically just need a description of the format so just a few lines from the a file would...
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Forum: SOLiD
06-19-2009, 02:57 PM
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Replies: 6
Views: 2,621
@Ruby, I have no problems loading the website,...
@Ruby, I have no problems loading the website, are you seeing the other pages alright. If you have further problems with the website, please contact support@clcbio.com
@Stegger, thanks for posting...
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Forum: SOLiD
06-18-2009, 01:53 PM
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Replies: 6
Views: 2,621
@Ruby
**Disclaimer: I work at CLC bio**
Hi Ruby,
We have some tutorials on expression analysis that may be of interest to you, you can find these at - http://www.clcbio.com/index.php?id=649
We also...
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Forum: Epigenetics
06-18-2009, 01:09 AM
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Replies: 13
Views: 8,104
@SPGSling
Are you allowing the algorithm to align reads with multiple matches?
If this dramatically increases the number of aligned reads it would indicate problems with overly amplified repeat regions.
Have...
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Forum: Epigenetics
06-18-2009, 12:48 AM
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Replies: 13
Views: 8,104
@SPGSling
What length reads are you aligning and against what reference?
Cheers
Roald
** Disclaimer: I work at CLC bio **
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Forum: Bioinformatics
06-16-2009, 04:40 AM
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Replies: 65
Views: 35,845
To Lesley
Disclaimer: I work at CLC bio
Hi Lesley,
It is correct that there are no options to sort tagged/barcoded Illumina PE data in our current "Multiplexing by tag" functionality. We designed this...
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Forum: Bioinformatics
06-15-2009, 03:38 AM
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Replies: 65
Views: 35,845
CLC Genomics 3.5
Disclaimer: I work at CLC bio
Hi Arne,
I have added some comments to your post here that I hope may be of use:
You are right that the Java side of our software uses a lot of memory. In order to...
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Forum: Bioinformatics
06-12-2009, 04:11 AM
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Replies: 65
Views: 35,845
Workbench issues
** Disclaimer: I work at CLC bio **
Hi Lesley,
I am sorry to hear that you have had some problems getting started with our workbench. I have added a few comments below that I hope are useful to...
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Forum: SOLiD
03-19-2009, 03:53 AM
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Replies: 22
Views: 43,599
Hi RudyS,
Thank you for your interest.
...
Hi RudyS,
Thank you for your interest.
We are now at version 3.2 with the Genomics Workbench and I recommend you to get the updated version if you have not done so already.
At the moment we...
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Forum: SOLiD
02-12-2009, 01:40 PM
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Replies: 22
Views: 43,599
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Forum: SOLiD
01-29-2009, 01:28 AM
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Replies: 22
Views: 43,599
Disclaimer: I work at CLC bio
We have just...
Disclaimer: I work at CLC bio
We have just included native color space assembly in our NGS cell software
http://clcbio.com/index.php?id=1331
You can grab a white paper with benchmarks at...
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Forum: Epigenetics
11-03-2008, 01:32 AM
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Replies: 20
Views: 75,813
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Forum: Bioinformatics
09-26-2008, 05:09 AM
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Replies: 65
Views: 35,845
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Forum: Bioinformatics
09-05-2008, 01:19 AM
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Replies: 11
Views: 4,662
DeepSAGE using 454 platform
Hi Melano,
If 454 is the platform you will be doing this on, you may wish to explore the DeepSAGE approach for linking tags before pyrosequencing. This way you can increase sampling depth.
The...
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Forum: Bioinformatics
08-29-2008, 06:49 AM
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Replies: 65
Views: 35,845
CLC Genomics Workbench and more
Dear all,
Several people have requested that we wrote an introduction to the CLC Genomics Workbench, so here goes.
Next generation sequencing technologies are causing some dramatic changes in...
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Forum: General
08-29-2008, 06:48 AM
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Replies: 5
Views: 38,834
CLC Genomics Workbench and more
Dear all,
Several people have requested that we wrote an introduction to the CLC Genomics Workbench, so here goes.
Next generation sequencing technologies are causing some dramatic changes in...
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Forum: Introductions
08-28-2008, 05:16 AM
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Replies: 4
Views: 3,184
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Forum: Introductions
08-20-2008, 12:31 AM
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Replies: 4
Views: 3,184
CLC bio info
Hi Melissa,
Thank you for asking. I am preparing a short piece on our software and some of the thoughts behind it. I will put it in the thread you suggested.
Best regards
Roald
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