Forum: Metagenomics
06-07-2016, 06:46 AM
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Replies: 0
Views: 1,470
auto log-off on IMG website
Wow, who thought it was a good idea to implement an auto log-off after 55 minutes...?! :mad: Over the past few days I have found myself distracted for a little while on something else and go back to...
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Forum: Bioinformatics
01-06-2016, 05:43 AM
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Replies: 15
Views: 4,500
Thanks Brian, I appreciate the response! It's...
Thanks Brian, I appreciate the response! It's been my experience that merging reads has not improved the datasets with OMEGA, but has helped with Megahit (our reads have been merging 70-90%).
More...
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Forum: Bioinformatics
01-05-2016, 10:44 AM
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Replies: 15
Views: 4,500
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Forum: Academic/Non-Profit Jobs
03-13-2014, 04:54 AM
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Replies: 0
Views: 1,025
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Forum: Illumina/Solexa
02-04-2014, 04:45 AM
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Replies: 10
Views: 6,241
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Forum: Introductions
02-03-2014, 04:26 AM
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Replies: 2
Views: 1,786
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Forum: Ion Torrent
11-25-2013, 06:02 AM
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Replies: 2
Views: 3,412
Hi Sergio,
I'm also relatively new at this...
Hi Sergio,
I'm also relatively new at this also, but... I can help somewhat. The Ion Torrent software usually trims off the 5' adapter, so unless you have a primer, you generally don't have to do 5'...
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Forum: Bioinformatics
11-19-2013, 04:16 AM
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Replies: 7
Views: 2,940
I'll throw my 2 cents in... from recent...
I'll throw my 2 cents in... from recent experience. Less cores might be slower but not enough RAM can really ruin your day. More RAM is better than faster RAM, if you're on a budget.
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Forum: Metagenomics
11-13-2013, 04:11 AM
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Replies: 5
Views: 3,882
I started off using the binary, but as I...
I started off using the binary, but as I mentioned, it seems like it's looking for paired data exclusively, so I switched to using 1.3 (non-binary) version. I am still having trouble getting the...
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Forum: Metagenomics
11-12-2013, 08:13 AM
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Replies: 5
Views: 3,882
I'm using single reads, so the -m is for...
I'm using single reads, so the -m is for specifying mate-paired reads, and the -i parameter is for insert size - I can't give an insert size as that only applies to paired reads... right?
I...
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Forum: Metagenomics
10-31-2013, 04:19 AM
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Replies: 5
Views: 3,882
Metamos help request
Has anyone out there used MetAmos with a single read fastq file? I've downloaded the binary with Blast DBs and tried using initPipeline -q -1 myfile.fastq which seems to work, but then when I do...
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Forum: Metagenomics
10-24-2013, 05:31 AM
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Replies: 1
Views: 3,539
What platform are you sequencing on? I would...
What platform are you sequencing on? I would like to see other's responses to this... I am sequencing on Ion Torrent PGM and the difference between 94, 97 and 99% is significant. I believe even...
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Forum: Bioinformatics
10-24-2013, 05:13 AM
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Replies: 7
Views: 3,722
Hi I can try to help... but you'll get better...
Hi I can try to help... but you'll get better answers on the QIIME google web group.
Like rhinoceros says, you should really go over the tutorials, they answer a lot of questions a new person might...
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Forum: Sample Prep / Library Generation
09-24-2013, 06:47 AM
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Replies: 5
Views: 2,847
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Forum: General
09-17-2013, 04:56 AM
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Replies: 3
Views: 2,787
I've been using the 515F-806R recently with...
I've been using the 515F-806R recently with adapters and barcodes on the primers. I have had a few samples not work, but I think it's more a problem with the DNA extraction for those particular...
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Forum: Bioinformatics
09-09-2013, 05:08 AM
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Replies: 2
Views: 1,879
Hi Katie,
Were the five that failed somehow...
Hi Katie,
Were the five that failed somehow different from the others as far as what they were from? Is there a possibility that those five somehow had a chemical present in the isolated DNA that...
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Forum: Introductions
03-27-2013, 10:35 AM
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Replies: 0
Views: 929
Introduction
Hi, I'm relatively new to the NGS world, I'm a microbiologist at CDC in Atlanta. Working on doing some 16s microbial community analyses of soil/plant matter. Looking forward to learning a lot here.
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