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Forum: General 02-17-2014, 09:02 AM
Replies: 51
Sticky: NGS Blogs
Views: 48,309
Posted By 2007lab
In light of recent events, I think I would...

In light of recent events, I think I would propose to add the following
http://liorpachter.wordpress.com/
(Bits of DNA where Lior Pachtor eats Bioinformaticians for breakfast, the tone and tenor...
Forum: Bioinformatics 04-26-2012, 01:11 PM
Replies: 3
Views: 2,843
Posted By 2007lab
bump! same question as bpetersen.

bump! same question as bpetersen.
Forum: Bioinformatics 05-11-2011, 07:25 PM
Replies: 1
Views: 1,240
Posted By 2007lab
Is your reads from whole genome or targeted...

Is your reads from whole genome or targeted sequencing?
I am also interested to know these, for SOLID, exome capture samples.
Forum: Bioinformatics 05-09-2011, 12:33 PM
Replies: 0
Views: 1,313
Posted By 2007lab
Cool Does bwa support SOLiD PE data?

Hi,
I have used 'bwa aln' and 'bwa sampe' for mapping Exome captured SOLiD PE reads.
I am getting very low PE mapping % (29-35%) One of the notes on the 'bwa version 0.5.9-r16' says:
Notes: ...
Forum: SOLiD 05-09-2011, 11:54 AM
Replies: 11
Views: 5,357
Posted By 2007lab
Hi Brugger, I saw your mail in the bwa mailing...

Hi Brugger,
I saw your mail in the bwa mailing list about your patch.
Do you know if the later version of BWA incorporates this?
What I have installed is 0.5.9-r16
Forum: Bioinformatics 05-06-2011, 10:12 AM
Replies: 36
Views: 7,651
Posted By 2007lab
Bump for the solid part of this thread. Once I...

Bump for the solid part of this thread.
Once I run the solid2fastq.pl to convert my csfasta and qual to a fastq.gz file, can I use fastx to do QC on my solid PE reads?
Forum: General 09-23-2010, 09:15 AM
Replies: 51
Sticky: NGS Blogs
Views: 48,309
Posted By 2007lab
Some more links

http://www.genomesunzipped.org/
http://saaientist.blogspot.com/
http://plindenbaum.blogspot.com/
http://blog.openhelix.eu/
http://blogs.discovermagazine.com
Forum: Genomic Resequencing 06-15-2010, 03:52 PM
Replies: 2
Views: 1,617
Posted By 2007lab
Question Multiple sample comparion or Segregation analysis

Hi,
Wondering if there has been any reports of multiple samples comparison done for variants?
Say in the TCGA or 100 exomes projects from different centres, has anyone developed scripts to compare...
Forum: General 05-11-2010, 03:48 PM
Replies: 2
Views: 1,770
Posted By 2007lab
Thanks westerman. That clarifies it for me.

Thanks westerman. That clarifies it for me.
Forum: General 05-11-2010, 07:23 AM
Replies: 51
Sticky: NGS Blogs
Views: 48,309
Posted By 2007lab
I would like to recommend: ...

I would like to recommend:
http://gettinggeneticsdone.blogspot.com/ (Mostly GWAS)
http://www.genomicslawreport.com/ (Ethical implications/ Law -Genomics, good coverage on the BRCA story(Myriad vs...
Forum: General 05-10-2010, 07:25 PM
Replies: 51
Sticky: NGS Blogs
Views: 48,309
Posted By 2007lab
Thanks! That is a great list Nils

Thanks! That is a great list Nils
Forum: General 05-10-2010, 07:24 PM
Replies: 2
Views: 1,770
Posted By 2007lab
Duplication sequence

What do people mean by "duplication sequence"?
Elaine Mardis says that they try to account for duplication sequences in this interview in Genomeweb Q&A.

Genomeweb...
Forum: Illumina/Solexa 03-17-2009, 09:41 AM
Replies: 9
Views: 12,671
Posted By 2007lab
Hi ECO, Just wondering what kind of uses do you...

Hi ECO, Just wondering what kind of uses do you forsee for the capture array?

Also do you have a link (news/ gossip/tech paper) to the Agilent solution array?
Forum: Events / Conferences 03-17-2009, 09:24 AM
Replies: 23
Views: 7,396
Posted By 2007lab
Would there be some kind of Video Archive for us...

Would there be some kind of Video Archive for us to peek into after the conference is over? like AACR for e.g.?
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