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Forum: Illumina/Solexa 11-17-2017, 08:09 AM
Replies: 2
Views: 1,116
Posted By yoyoming1001
Thanks GenoMax. Going to test it out.

Thanks GenoMax. Going to test it out.
Forum: Illumina/Solexa 11-17-2017, 05:40 AM
Replies: 2
Views: 1,116
Posted By yoyoming1001
Stream instrument data to S3 without BaseSpace?

Hi, does anyone know if there is a way to automatically stream data from the instruments to S3 without BaseSpace?
Forum: Genomic Resequencing 02-23-2015, 02:34 PM
Replies: 1
Views: 1,913
Posted By yoyoming1001
Publicly available Summary Statistics

Does any one know if there are any standard summary statistics and metric files available for viewing anywhere? If not, is there any non-standard summary reports available. I'm looking for relatively...
Forum: Bioinformatics 02-23-2015, 02:28 PM
Replies: 366
Views: 193,884
Posted By yoyoming1001
Anyone have any publicly available non-html output files?

I'm looking for any FastQC results output tables. Any help pointing me in the right direction would be really appreciated.
Forum: Bioinformatics 05-30-2014, 12:11 PM
Replies: 1
Views: 968
Posted By yoyoming1001
Are there software platforms that connect analysis tools on AWS

Looking for a way to build standard workflows easily with AWS.
Forum: Sample Prep / Library Generation 05-08-2013, 05:10 PM
Replies: 4
Views: 3,340
Posted By yoyoming1001
Thank you both for your replies. The libraries...

Thank you both for your replies. The libraries turned out fine in the end, which I'm so relieved about.
Forum: Sample Prep / Library Generation 05-05-2013, 07:22 AM
Replies: 4
Views: 3,340
Posted By yoyoming1001
I sheared DNA in RSB, will it still work?

I usually use 1x TE but made a mistake and used Illumina's RSB instead. First off, will the shearing still work? And second, if I try to ampure cleanup the sample after shearing, will the DNA bind to...
Forum: Introductions 03-08-2013, 06:13 PM
Replies: 5
Views: 1,998
Posted By yoyoming1001
Yes, I'd love to take a look. What a great thing...

Yes, I'd love to take a look. What a great thing to share.
Forum: General 03-08-2013, 05:37 AM
Replies: 4
Views: 8,280
Posted By yoyoming1001
Haha, yeah, I knew it in my head but skipped over...

Haha, yeah, I knew it in my head but skipped over it when writing it down.

I wasn't sure if there were any bioinformatics factors that would decrease the usable reads and therefore the lab would...
Forum: General 03-07-2013, 05:31 PM
Replies: 4
Views: 8,280
Posted By yoyoming1001
Thanks krobison. Good to see the math confirmed....

Thanks krobison. Good to see the math confirmed. It's a little odd to me since I thought labs had to push cluster densities on the HiSeq a bit in order to get 30x coverage in three lanes, but that's...
Forum: General 03-07-2013, 02:15 PM
Replies: 4
Views: 8,280
Posted By yoyoming1001
Read Length to Gigabase conversion

Really dumb question: how do you mathematically convert reads into gigabases and then calculate coverage?

if I have 600 million clusters sequenced at 2*100, then is it 600*200=120,000 gigabases...
Forum: Illumina/Solexa 10-14-2012, 12:06 PM
Replies: 2
Views: 3,212
Posted By yoyoming1001
Yep, that's what I figured. Not a huge deal but...

Yep, that's what I figured. Not a huge deal but kind of annoying. The main point of BaseSpace is to be able to manipulate data in the cloud. I guess I can't get too angry because it is still in beta...
Forum: Illumina/Solexa 10-14-2012, 06:29 AM
Replies: 2
Views: 3,212
Posted By yoyoming1001
BaseSpace: How do you run an app after the run is complete?

First time uploading to Basespace. Only generated FastQ's at first but now want to align it. There doesn't seem to be an option. Is it even possible?
Forum: Illumina/Solexa 11-02-2010, 05:05 AM
Replies: 2
Views: 2,492
Posted By yoyoming1001
Thanks so much HESmith. It worked! The only...

Thanks so much HESmith. It worked! The only difference was for that one sample the cluster number was a bit higher than the other samples. I wonder if that is expected since the neutralized NaOH...
Forum: Illumina/Solexa 10-17-2010, 07:29 AM
Replies: 2
Views: 2,492
Posted By yoyoming1001
10ul of 700pM library. How to Denature and cluster?

Hi, We have 10ul of a low quantity library (700pM) that we are trying to denature and load onto the flow cell at 10pM.

So far, the best that I can come up with while still keeping the NaOH...
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