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Forum: Illumina/Solexa 12-08-2014, 09:49 PM
Replies: 0
Views: 794
Posted By bioits
New to ILMN platform and have couple questions on on VCF filtering

Got a few VCF files, which have over 15K variants (rows) in each VCF file. I'd like to filter down reasonable number of rows before doing further analysis. While checking filter option, I only got...
Forum: Ion Torrent 02-21-2014, 06:39 AM
Replies: 14
Views: 7,563
Posted By bioits
Do you have BioA traces for input RNA and cDNA?...

Do you have BioA traces for input RNA and cDNA? If everything seems ok, I would try to dial down the input amount for OneTouch.
Forum: SOLiD 04-26-2013, 10:32 AM
Replies: 25
Views: 11,764
Posted By bioits
6 lanes total? The number doesn't sound right to...

6 lanes total? The number doesn't sound right to me.
Forum: SOLiD 04-26-2013, 10:23 AM
Replies: 25
Views: 11,764
Posted By bioits
Buffer D is different and even for those that are...

Buffer D is different and even for those that are same, total volume in most of the bottles are different too since WF doesn't use that much buffer.
Forum: Ion Torrent 01-05-2012, 02:53 PM
Replies: 28
Views: 18,116
Posted By bioits
It is in early access (Developer Access section).

It is in early access (Developer Access section).
Forum: SOLiD 12-05-2011, 05:21 PM
Replies: 4
Views: 3,398
Posted By bioits
I was told It has been available on the website. ...

I was told It has been available on the website.
Check appliedbiosystem.com and on the very top, click "quick order".
Forum: Ion Torrent 10-05-2011, 11:02 AM
Replies: 9
Views: 4,231
Posted By bioits
Even you can change the filter, how can you...

Even you can change the filter, how can you filter out polycolonal beads then?
Forum: Ion Torrent 10-04-2011, 08:37 PM
Replies: 9
Views: 4,231
Posted By bioits
Assume you can change the flow order. The current...

Assume you can change the flow order. The current filtering algorithm by default take 60% incorporation rate as cutoff. Based on your model, incorporation rate is almost 100%, which will be...
Forum: Ion Torrent 09-28-2011, 02:45 PM
Replies: 7
Views: 4,703
Posted By bioits
For enrichement, it takes about 30mins. It's a...

For enrichement, it takes about 30mins. It's a very neat instrument (just a basic and cute liquid handler).
If you have done manual method, you are going to love it.
Forum: Ion Torrent 08-03-2011, 06:04 PM
Replies: 5
Views: 4,010
Posted By bioits
I guess it really depends on your application....

I guess it really depends on your application. Enzymatic method will always has more or less bias comparing to sonication one. If the little bias doesn't bother you, sell or return the bioruptor.
Forum: SOLiD 07-07-2011, 09:50 AM
Replies: 5
Views: 4,106
Posted By bioits
Since there is no cleave step after last cycle of...

Since there is no cleave step after last cycle of each primer, if you run out of reset buffer, any further ligation won'thappen and most likely the instrument will just repeat to scan the last cycle...
Forum: SOLiD 06-23-2011, 01:28 PM
Replies: 2
Views: 2,755
Posted By bioits
Hi Anthony, AB does provide a tool to deal...

Hi Anthony,

AB does provide a tool to deal with smRNA data but I haven't tried myself.

http://solidsoftwaretools.com/gf/project/rna2map/
Forum: Ion Torrent 04-26-2011, 05:39 PM
Replies: 10
Views: 5,283
Posted By bioits
I think 318 chip won't be 100bp anymore. 200 or...

I think 318 chip won't be 100bp anymore. 200 or 400?
Forum: Ion Torrent 04-14-2011, 08:24 AM
Replies: 34
Views: 14,372
Posted By bioits
The new protocol is just out and no hexane...

The new protocol is just out and no hexane anymore.
Forum: SOLiD 02-17-2011, 11:35 AM
Replies: 45
Views: 10,790
Posted By bioits
Try to declump before adding Terminal...

Try to declump before adding Terminal Transferase. It seems helpful.
Forum: SOLiD 02-15-2011, 06:06 PM
Replies: 4
Views: 3,599
Posted By bioits
They didn't upload earlier. Now is up.

They didn't upload earlier. Now is up.
Forum: SOLiD 01-25-2011, 05:03 PM
Replies: 40
Views: 10,887
Posted By bioits
Sorry, just remind me. It is called .xsq...

Sorry, just remind me. It is called .xsq (eXtensible SeQuence)
Forum: SOLiD 01-24-2011, 10:12 AM
Replies: 40
Views: 10,887
Posted By bioits
I believe it is called HDF, which is a...

I believe it is called HDF, which is a standardized file format (single file replaces csfasta, qual, and spch files).
Forum: Helicos / Direct Genomics 11-22-2010, 07:48 PM
Replies: 18
Views: 14,597
Posted By bioits
I think Paul knows NASDAQ rules. I guess what he...

I think Paul knows NASDAQ rules. I guess what he really meant is he doesn't know why Helicos' marketing team didn't do a good job. After all, the technology itself is good enough for some...
Forum: SOLiD 11-22-2010, 07:43 PM
Replies: 7
Views: 2,103
Posted By bioits
You meant the latest v4.0.4? I haven't seen any...

You meant the latest v4.0.4? I haven't seen any issue since it was patched about a month ago.
After you restarted ICS, were you able to get your data back? How did you do if not? Rerun those...
Forum: SOLiD 10-19-2010, 07:59 PM
Replies: 40
Views: 10,887
Posted By bioits
I heard the same. In addition, from the slide...

I heard the same. In addition, from the slide they showed, HQ will have a new look, more like PI not S4.
Forum: SOLiD 10-06-2010, 08:44 AM
Replies: 11
Views: 3,928
Posted By bioits
Comparing to the manual prep, EZ bead is so much...

Comparing to the manual prep, EZ bead is so much easier and works well so far.
Forum: SOLiD 09-14-2010, 05:43 PM
Replies: 40
Views: 10,887
Posted By bioits
From the link below, it sounds like PI will be...

From the link below, it sounds like PI will be available in Dec and HQ in March next year....
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