Forum: Bioinformatics
04-26-2015, 12:51 PM
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Replies: 252
Views: 107,815
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Forum: Bioinformatics
04-26-2015, 12:42 PM
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Replies: 252
Views: 107,815
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Forum: Bioinformatics
04-26-2015, 12:36 PM
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Replies: 252
Views: 107,815
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Forum: Bioinformatics
04-26-2015, 12:30 PM
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Replies: 252
Views: 107,815
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Forum: Bioinformatics
04-14-2015, 02:28 PM
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Replies: 11
Views: 5,495
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Forum: Bioinformatics
12-10-2014, 05:52 PM
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Replies: 58
Views: 13,132
Thanks for clarifying that. I am having real...
Thanks for clarifying that. I am having real trouble installing the software:
@BioPower3-IBM ~/programs/meraculous-2.0.4 $ export Boost_INCLUDE_DIRS=/home/adrian/programs/boost_1_55_0/boost/...
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Forum: Bioinformatics
12-08-2014, 05:08 PM
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Replies: 58
Views: 13,132
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Forum: Bioinformatics
09-10-2014, 09:35 AM
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Replies: 0
Views: 867
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Forum: Bioinformatics
09-10-2014, 09:32 AM
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Replies: 0
Views: 822
Anyone know of Tetraploid NGS available?
Hello,
I am trying to interpret my k-mer graph which indicates that my organism might be tetraploid. However, I cannot find any good tetraploid NGS data to compare to. All plants are usually...
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Forum: Bioinformatics
09-03-2014, 09:32 AM
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Replies: 13
Views: 18,530
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Forum: Bioinformatics
06-14-2014, 09:16 PM
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Replies: 3
Views: 2,816
I am more interested in events between strains....
I am more interested in events between strains. The data shows the organism is clonal, so the strain can be treated as an individual, most variation is due to ploidy. My coverages range from 120x to...
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Forum: Bioinformatics
06-14-2014, 06:26 PM
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Replies: 3
Views: 2,816
Test for recombination in a clonal tetraploid?
I have been searching this subject and trying to find a technique that fits my needs and so far I have been having no success.
I am looking to test try and find crossover events in my HiSeq...
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Forum: Bioinformatics
06-14-2014, 06:24 PM
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Replies: 252
Views: 107,815
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Forum: Bioinformatics
05-16-2014, 02:03 PM
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Replies: 0
Views: 656
Recombination from phased data
Hello,
I am using NGS to obtain data from a couple of isolates of one species. The isolates seem to be very similar to each other, sharing a lot of genetic variation (SNPs).
I managed to phase...
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Forum: Bioinformatics
04-21-2014, 09:45 AM
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Replies: 58
Views: 13,132
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Forum: Bioinformatics
04-20-2014, 10:35 AM
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Replies: 58
Views: 13,132
This sounds really cool!
Now if the data is...
This sounds really cool!
Now if the data is MiSeq and the 250bp reads overlap, should I perform merging first?
Also, what coverage do you suggest the normalization to take place? is 50x enough?...
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Forum: Bioinformatics
04-20-2014, 06:28 AM
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Replies: 58
Views: 13,132
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Forum: Bioinformatics
04-15-2014, 03:40 PM
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Replies: 1
Views: 987
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Forum: Bioinformatics
04-14-2014, 04:08 PM
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Replies: 6
Views: 3,224
I have never heard of your initial idea of...
I have never heard of your initial idea of demultiplexing based on similarity. That's essentially what an assembler does, separates reads based on which reads form contigs...
There is no proof of...
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Forum: Bioinformatics
04-13-2014, 05:58 PM
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Replies: 6
Views: 3,224
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Forum: Bioinformatics
04-13-2014, 01:22 PM
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Replies: 1
Views: 987
Detecting Recombination from NGS polyploid data
Hello,
I have a clonally propagating fungus that I am resequencing from different geographic locations. Since it is thought to be clonal, I expect very little or no recombination happening,...
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Forum: Bioinformatics
04-13-2014, 01:15 PM
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Replies: 6
Views: 3,224
All you want is mtDNA right?
Just assemble...
All you want is mtDNA right?
Just assemble it w/o demultiplexing, you should get mtDNA contigs for each of your taxa.
How long is your fragment size? With MiSeq + your situation I recommend...
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Forum: Bioinformatics
04-13-2014, 07:09 AM
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Replies: 12
Views: 5,646
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Forum: Bioinformatics
04-12-2014, 06:39 PM
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Replies: 3
Views: 2,149
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Forum: Bioinformatics
04-12-2014, 06:13 PM
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Replies: 3
Views: 2,149
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