Google maps for next-gen facilities - Page 3

cgb · 12-21-2009, 05:46 AM

But by my calculation it is only catching about 15% of all the installations. How do we get the rest to sign up ?

SPQR · 02-08-2010, 05:18 PM

Quote:

Originally Posted by james hadfield

And of course, for those interested in the question of which platform is
in the lead, we will be putting league tables up shortly. But we wanted
to give the community some time to help get the map as accurate as
possible. Look out for the tables next week.

James - fantastic work, very very useful. What's the status on the league tables?

lcollado · 02-08-2010, 07:58 PM

Hello,

I just added a few mexican sites -- sadly most don't have webpages in English. Anyhow, I was at a loss as to how to edit one entry, so if you get stuck like me, take these steps:

Open the map
Click on the "Browse" tab
Click on the name of the sequencing centre
Click on the "update this centre's details" link
Edit all you want

For the map location just drag and drop it ^^
Click on "submit changes"

Greetings,
Leo

nickloman · 02-12-2010, 03:40 AM

Quote:

Originally Posted by SPQR

James - fantastic work, very very useful. What's the status on the league tables?

I've got them working and hope to put them live in the next few days.

I'll post again when they are ready.

nickloman · 02-12-2010, 03:41 AM

Quote:

Originally Posted by lcollado

Hello,

I just added a few mexican sites -- sadly most don't have webpages in English. Anyhow, I was at a loss as to how to edit one entry, so if you get stuck like me, take these steps:
Greetings,
Leo

Thanks Leo for posting this. I'm in the process of making a few changes to the map site to hopefully make it more intuitive to edit/add centres.

VanessaS · 02-12-2010, 06:32 AM

UT Southwestern in Dallas has a SOLiD 3+ and an Illumina. Baylor in Dallas has a SOLiD, I believe.

nickloman · 02-12-2010, 06:39 AM

Hi Vanessa - feel free to update the map! It's a community resource so relies on the users to keep it current.

VanessaS · 02-12-2010, 07:55 AM

All updated!

megwelch · 02-24-2010, 01:03 PM

Dear James,
Miami Institute for Human Genomics has been renamed, John P. Hussman Institute for Human Genomics. We have 2 GAIIx and 2 SOLiD3.

Thanks!
Meg Welch

nickloman · 03-18-2010, 08:00 AM

Hi guys

James will be posting in a new thread I think but just to say the map site has been updated with the following refinements:
* there is now a statistics page at http://pathogenomics.bham.ac.uk/hts/stats
* clusters now represent machine numbers rather than number of facilities, label shows number of machines when zoomed in
* dynamic list of centre on the right
* ability to zoom in to centre
* bit prettier

Go now! http://pathogenomics.bham.ac.uk/hts

I've also blogged a short summary at http://pathogenomics.bham.ac.uk/blog...for-2nd-place/

Cheers

Nick

steven · 03-18-2010, 12:38 PM

Awesome, thanks a lot Nick! and thanks to the contributors!

ECO · 03-23-2010, 07:44 PM

Just added the link to the front page of this site...and redirected http://map.seqanswers.com there as well. Great effort.

krobison · 03-23-2010, 09:15 PM

Apologies, in my zeal to try to add centers to the U.S. sequencing capital* I seem to have cloned both the DFCI Heliscope and the Children's Hospital Boston SOLiD

I think I have the Heliscope down to one instance, but fixing the Children's mistake will require eliminating a center -- does that happen automatically if you knock its sequencer count to 0?

Another case of this: Geschwind lab out in CA seems to be duplicated. Michael Smith in Vancouver appears to have two tags, but with different sequencer numbers.

* -- :-)

nickloman · 03-24-2010, 02:07 AM

Thanks for the updates. I think I've killed the duplicate entries you mentioned via the backend admin.

Are you sure the Geschwind lab is duplicated, I can only see that once.

I tend to moderate all the updates and pick up the duplicates before they are added to the site and delete them, but I do occasionally miss them as the updates have been coming thick and fast recently ...

seqmaster · 07-31-2010, 06:47 AM

hi, congratulations, this is a great initiative and great work so far.

I have found a bug tho, so... here you go:

on the map, we can see for the Max Planck Institute in Berlin 12 sequencers however, on the statistics page the institute is not mentioned in the top 10 (it should be on place nr. 10)

Maybe you can update the statistics page using the map info?

Hope i helped, laterz

nickloman · 08-05-2010, 04:20 AM

Hi seqmaster

The reason Max Planck isn't on that table is because the table summarises the top genome centres, defined by those places that are dedicated genome centres (as opposed to univerisities, research institutes etc.) - this discrimination may not be particularly helpful as I'm not sure how accurate the data is, but that's the reason for now.

Cheers

jimmybee · 11-14-2010, 12:33 PM

James,

Insitute of Plant Biology, University of Zurich does not have a next generation sequencer and so can be updated on the map.

Cheers

scrosby · 05-04-2011, 07:36 AM

This is stellar work! Could you please add:

The Genome Technology Access Center at Washington University
Campus Box 8232
660 South Euclid
St. Louis, MO 63110
314.286.1256

We currently have 2 HiSeqs.

charsbak · 07-27-2011, 10:04 AM

This is great work. Is there a way to output the raw data from this map, so I can create my own stats table?

james hadfield · 08-08-2011, 06:48 AM

The data on the map are submitted with no request to make them any more publically available than we have already in the stats page. I am not sure we can simply post the info out. However we are considering changes t the map and I would be grateful for any and all suggestions on what users would like to see on it.

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12-21-2009, 05:46 AM	#41
cgb Member Location: Cambridge Join Date: May 2008 Posts: 50	Love the map But by my calculation it is only catching about 15% of all the installations. How do we get the rest to sign up ?

02-08-2010, 07:58 PM	#43
lcollado Member Location: Baltimore, MD Join Date: Jun 2009 Posts: 65	Hello, I just added a few mexican sites -- sadly most don't have webpages in English. Anyhow, I was at a loss as to how to edit one entry, so if you get stuck like me, take these steps: Open the map Click on the "Browse" tab Click on the name of the sequencing centre Click on the "update this centre's details" link Edit all you want For the map location just drag and drop it ^^ Click on "submit changes" Greetings, Leo __________________ L. Collado Torres, Ph.D. student in Biostatistics.

02-24-2010, 01:03 PM	#49
megwelch Junior Member Location: South Florida Join Date: Feb 2010 Posts: 1	Hussman Institute for Human Genomics Dear James, Miami Institute for Human Genomics has been renamed, John P. Hussman Institute for Human Genomics. We have 2 GAIIx and 2 SOLiD3. Thanks! Meg Welch

05-04-2011, 07:36 AM	#58
scrosby Director, GTAC, Washington U. Location: St. Louis Join Date: Nov 2009 Posts: 32	Gtac This is stellar work! Could you please add: The Genome Technology Access Center at Washington University Campus Box 8232 660 South Euclid St. Louis, MO 63110 314.286.1256 We currently have 2 HiSeqs.

02-12-2010, 06:32 AM	#46
VanessaS Member Location: Dallass Join Date: Nov 2009 Posts: 49	UT Southwestern in Dallas has a SOLiD 3+ and an Illumina. Baylor in Dallas has a SOLiD, I believe.

02-12-2010, 06:39 AM	#47
nickloman Senior Member Location: Birmingham, UK Join Date: Jul 2009 Posts: 356	Hi Vanessa - feel free to update the map! It's a community resource so relies on the users to keep it current.

02-12-2010, 07:55 AM	#48
VanessaS Member Location: Dallass Join Date: Nov 2009 Posts: 49	All updated!

03-18-2010, 08:00 AM	#50
nickloman Senior Member Location: Birmingham, UK Join Date: Jul 2009 Posts: 356	Hi guys James will be posting in a new thread I think but just to say the map site has been updated with the following refinements: * there is now a statistics page at http://pathogenomics.bham.ac.uk/hts/stats * clusters now represent machine numbers rather than number of facilities, label shows number of machines when zoomed in * dynamic list of centre on the right * ability to zoom in to centre * bit prettier Go now! http://pathogenomics.bham.ac.uk/hts I've also blogged a short summary at http://pathogenomics.bham.ac.uk/blog...for-2nd-place/ Cheers Nick

03-18-2010, 12:38 PM	#51
steven Senior Member Location: Southern France Join Date: Aug 2009 Posts: 269	Awesome, thanks a lot Nick! and thanks to the contributors!

03-23-2010, 07:44 PM	#52
ECO --Site Admin-- Location: SF Bay Area, CA, USA Join Date: Oct 2007 Posts: 1,358	Just added the link to the front page of this site...and redirected http://map.seqanswers.com there as well. Great effort.

03-23-2010, 09:15 PM	#53
krobison Senior Member Location: Boston area Join Date: Nov 2007 Posts: 747	Apologies, in my zeal to try to add centers to the U.S. sequencing capital* I seem to have cloned both the DFCI Heliscope and the Children's Hospital Boston SOLiD I think I have the Heliscope down to one instance, but fixing the Children's mistake will require eliminating a center -- does that happen automatically if you knock its sequencer count to 0? Another case of this: Geschwind lab out in CA seems to be duplicated. Michael Smith in Vancouver appears to have two tags, but with different sequencer numbers. * -- :-)

03-24-2010, 02:07 AM	#54
nickloman Senior Member Location: Birmingham, UK Join Date: Jul 2009 Posts: 356	Thanks for the updates. I think I've killed the duplicate entries you mentioned via the backend admin. Are you sure the Geschwind lab is duplicated, I can only see that once. I tend to moderate all the updates and pick up the duplicates before they are added to the site and delete them, but I do occasionally miss them as the updates have been coming thick and fast recently ...

07-31-2010, 06:47 AM	#55
seqmaster Junior Member Location: currently hiding from interpol tbh Join Date: Jul 2010 Posts: 6	hi, congratulations, this is a great initiative and great work so far. I have found a bug tho, so... here you go: on the map, we can see for the Max Planck Institute in Berlin 12 sequencers however, on the statistics page the institute is not mentioned in the top 10 (it should be on place nr. 10) Maybe you can update the statistics page using the map info? Hope i helped, laterz

08-05-2010, 04:20 AM	#56
nickloman Senior Member Location: Birmingham, UK Join Date: Jul 2009 Posts: 356	Hi seqmaster The reason Max Planck isn't on that table is because the table summarises the top genome centres, defined by those places that are dedicated genome centres (as opposed to univerisities, research institutes etc.) - this discrimination may not be particularly helpful as I'm not sure how accurate the data is, but that's the reason for now. Cheers

11-14-2010, 12:33 PM	#57
jimmybee Senior Member Location: Adelaide, Australia Join Date: Sep 2010 Posts: 119	James, Insitute of Plant Biology, University of Zurich does not have a next generation sequencer and so can be updated on the map. Cheers

07-27-2011, 10:04 AM	#59
charsbak Junior Member Location: California Join Date: Dec 2009 Posts: 1	This is great work. Is there a way to output the raw data from this map, so I can create my own stats table?

08-08-2011, 06:48 AM	#60
james hadfield Moderator Cambridge, UK Community Forum Location: Cambridge, UK Join Date: Feb 2008 Posts: 221	The data on the map are submitted with no request to make them any more publically available than we have already in the stats page. I am not sure we can simply post the info out. However we are considering changes t the map and I would be grateful for any and all suggestions on what users would like to see on it.