Forum: Bioinformatics
06-30-2014, 10:38 PM
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Replies: 3
Views: 3,288
Dear all,
I want to re-open this discussion...
Dear all,
I want to re-open this discussion as I have a similar question: how can I detect and extract overhanging reads, and this at both ends of my reference?
I have overlapping MiSeq reads...
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Forum: Bioinformatics
04-25-2012, 06:05 AM
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Replies: 4
Views: 1,992
I used two different methods to extract my DNA,...
I used two different methods to extract my DNA, which was than sequenced and assembled. I want now to know which method gave me the best results, by comparing the two assemblies. I want to find out...
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Forum: Bioinformatics
04-24-2012, 11:25 PM
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Replies: 4
Views: 1,992
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Forum: Bioinformatics
10-07-2011, 02:25 AM
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Replies: 9
Views: 3,227
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Forum: The Pipeline
08-24-2011, 12:07 AM
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Replies: 0
Views: 3,399
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Forum: Literature Watch
07-17-2011, 11:09 PM
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Replies: 2
Views: 2,273
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Forum: Bioinformatics
07-12-2011, 06:42 AM
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Replies: 1
Views: 1,425
Assembly Comparison
Dear all,
Let's say I have performed several assemblies on the same dataset and I would like to compare the results. I know I can look at N50, average contig length, etc. But I was more thinking...
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Forum: Events / Conferences
05-02-2011, 02:37 AM
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Replies: 0
Views: 2,614
Workshop on Cutting-edge Bioinformatics - BGI
Workshop on Cutting-edge Bioinformatics
June 20-24, 2011, Shenzhen, China
Workshop on Cutting-edge Bioinformatics will be organized by BGI (formerly known as the Beijing Genomics Institute),...
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Forum: The Pipeline
01-04-2011, 12:50 AM
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Replies: 8
Views: 11,437
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Forum: Literature Watch
10-19-2010, 04:31 AM
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Replies: 0
Views: 2,188
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Forum: Bioinformatics
10-07-2010, 06:29 AM
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Replies: 7
Views: 3,482
highly repetitive....
we have the illumina...
highly repetitive....
we have the illumina dataset available. But we are thinking of adding a 454 low coverage set. I think we can do three things:
- all de novo (hybrid assembly)
- illumina de...
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Forum: Bioinformatics
10-07-2010, 04:54 AM
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Replies: 7
Views: 3,482
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Forum: General
08-11-2010, 11:33 PM
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Replies: 8
Views: 3,353
Hi,
if you sequence your data with BGI, the...
Hi,
if you sequence your data with BGI, the bioinformatics analysis are included. And from our experience they are not only with many people, they also provide really nice curated data (even on...
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Forum: Bioinformatics
07-26-2010, 01:55 AM
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Replies: 1
Views: 1,544
clustering based on SNP information
Dear all,
I have re-sequencing data for many genotypes for the same set of genes. As expected, the differences are minor and are most of the time SNPs. As I want to cluster the genotypes based on...
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Forum: Events / Conferences
07-23-2010, 02:26 AM
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Replies: 0
Views: 2,988
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Forum: General
05-31-2010, 11:38 PM
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Replies: 26
Views: 12,092
another player (nanopore sequencing) (Kavli...
another player (nanopore sequencing) (Kavli Institute of Nanoscience, The Netherlands)
Graphene Nanopores Solve DNA Sequencing Problem
http://www.technologyreview.com/blog/arxiv/25252/
The...
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Forum: Bioinformatics
05-19-2010, 01:32 AM
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Replies: 4
Views: 3,033
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Forum: De novo discovery
05-12-2010, 01:10 AM
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Replies: 4
Views: 4,737
Why do you need to view your contigs or...
Why do you need to view your contigs or scaffolds? As this is a de novo assembly, the only thing you get back are contigs or scaffolds. You can look at them in a special viewer, but you will see...
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Forum: Bioinformatics
04-12-2010, 04:50 AM
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Replies: 13
Views: 6,623
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Forum: Bioinformatics
04-12-2010, 12:32 AM
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Replies: 10
Views: 4,397
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Forum: Bioinformatics
04-08-2010, 01:19 AM
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Replies: 15
Views: 6,386
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Forum: Bioinformatics
04-08-2010, 01:06 AM
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Replies: 15
Views: 6,386
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Forum: Bioinformatics
04-07-2010, 11:28 PM
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Replies: 10
Views: 4,397
velvet test
Dear all,
I just received 1 Flow cell of illumina plant sequencing data (75bp PE reads, ~2 X 26 million reads/lane). As we don't have in most cases a reference sequence available, I will have to...
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Forum: Bioinformatics
03-31-2010, 07:12 AM
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Replies: 17
Views: 27,731
I receive the same error message when running...
I receive the same error message when running SAMtoBED, downloaded from this site : http://people.virginia.edu/~arq5x/utilities.html
I also created this SAM file from an Bowtie run (-S) (version...
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Forum: Bioinformatics
03-23-2010, 08:35 AM
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Replies: 12
Views: 2,707
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