tag:blogger.com,1999:blog-4123559132014627431.post3943178039868187308..comments2024-03-29T02:32:47.284-07:00Comments on Eurogenes Blog: Modeling your ancestry has never been easierDavidskihttp://www.blogger.com/profile/04637918905430604850noreply@blogger.comBlogger69125tag:blogger.com,1999:blog-4123559132014627431.post-15810378741236484202019-12-18T05:11:44.951-08:002019-12-18T05:11:44.951-08:00@vahaduo
Thanks man, they look awesome.
@vahaduo<br /><br />Thanks man, they look awesome.<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-24945123713431206782019-12-18T01:47:39.861-08:002019-12-18T01:47:39.861-08:00@ Davidski
Updated PCAs are now online. I've ...@ Davidski<br /><br />Updated PCAs are now online. I've built a code generator based on the Custom PCA tool, so now I'm able to add/update any PCA within few minutes.<br /><br />Additionally I've added hash-based routing so it's possible now to link directly to a PCA of your choice: <br /> <br /><a href="https://vahaduo.github.io/g25views/#WestEurasia" rel="nofollow">https://vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-70434857426445986862019-12-13T01:47:37.798-08:002019-12-13T01:47:37.798-08:00@All
Whoops, just edited the new North Euro datas...@All<br /><br />Whoops, just edited the new North Euro datasheet. Had to get rid of some obvious outliers.<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-61596009309197830642019-12-11T05:14:26.644-08:002019-12-11T05:14:26.644-08:00@vahaduo
I've updated some of the PCA datashe...@vahaduo<br /><br />I've updated some of the PCA datasheets with a lot of new samples, using the same pop codes as in the Global 25 Views plots. <br /><br />They may or may not look better online than the old ones. If they do, it might be worth updating them at some point if it doesn't take too long. <br /><br /><a href="https://drive.google.com/open?id=1ydPL8HOTBd54P3Uu3idth1EJU6TpU4MW" Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-83520416240108496022019-12-08T13:19:58.803-08:002019-12-08T13:19:58.803-08:00Very nice update Vahaduo.Very nice update Vahaduo.Matthttps://www.blogger.com/profile/04517454865405705885noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-13855452976708848742019-12-07T23:11:00.460-08:002019-12-07T23:11:00.460-08:00Dude, you're on fire!Dude, you're on fire!<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-39738745047390584332019-12-07T23:00:18.637-08:002019-12-07T23:00:18.637-08:00New tool for reprocessing PCA data:
https://vahad...New tool for reprocessing PCA data:<br /><br />https://vahaduo.github.io/custompca/<br /><br />SOURCE<br />Samples placed here will define the PCA space.<br /><br />PROJECTED<br />Samples placed here will be projected onto that space.<br /><br />PCA DATA<br />Result of the PCA will be automatically placed here. You can copy and reuse this data in e.g. PAST. You can also paste coordinates into vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-19766693460149249522019-12-07T04:21:18.509-08:002019-12-07T04:21:18.509-08:00Yep, nice one!
Yep, nice one!<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-41445168173787058582019-12-07T04:10:34.577-08:002019-12-07T04:10:34.577-08:00@ Davidski
I've updated g25v few minutes ago ...@ Davidski<br /><br />I've updated g25v few minutes ago with some hidden feature.<br /><br />Type join@ at the beginning and all points will be added under one label - population name of the first sample.<br /><br />join@Yamnaya_RUS_Samara:I0357,0.126344,0.092413 (...) = Yamnaya_RUS_Samara<br /><br />You can also specify a custom label by typing join@some_name;<br /><br />join@Steppe;vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-158396206095202262019-12-06T23:39:54.181-08:002019-12-06T23:39:54.181-08:00Thanks. Looks great.
And yes, it should be Nivkh....Thanks. Looks great.<br /><br />And yes, it should be Nivkh. That typo came with the original dataset.<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-36699664192857563942019-12-06T23:33:26.449-08:002019-12-06T23:33:26.449-08:00@ Davidski
North Eurasian PCA (1: 1&2, 2: 1&a...@ Davidski<br /><br />North Eurasian PCA (1: 1&2, 2: 1&4, 3: 1&5) is already online. <br />BTW shouldn't "Nivh" be "Nivkh"?<br /><br />Combining the datasheets should work fine, although obtaining clear views may be tricky. Later today I'll post something that may be helpful in such case.vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-14527370928113182492019-12-06T18:57:53.854-08:002019-12-06T18:57:53.854-08:00Actually, here's a North Eurasian datasheet......Actually, here's a North Eurasian datasheet...<br /><br /><a href="https://drive.google.com/open?id=1t-o28Hk6g7ph8V3gK0VNSPEJlnk0gjiK" rel="nofollow">G25_North_Eurasia_scaled</a><br /><br />A couple of different views would be nice. Maybe 1&2 and 1&4?<br /><br />Hopefully, I didn't include any duplicates or missed too many relevant pops.<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-58896884613179784072019-12-06T16:37:02.760-08:002019-12-06T16:37:02.760-08:00@vahaduo
Nice. The new PNG files look great.
Btw...@vahaduo<br /><br />Nice. The new PNG files look great.<br /><br />Btw, would it be possible to combine the West Eurasian and East Asian datasheets to create a Eurasian PCA?<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-43873993285012460932019-12-05T18:44:43.021-08:002019-12-05T18:44:43.021-08:00@ Davidski
Fixed! Plus an update:
Changes in the ...@ Davidski<br />Fixed! Plus an update:<br /><br />Changes in the updated Global 25 Views tool:<br /><br />- margins reduced to a minimum - bigger plot area (20% on my small screen),<br />- "Save" menu for downloading graph images - multiple sizes with different aspect ratios,<br />- custom colour scheme with toned down colours of the background PCA - better visibility of projected vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-9372556830143490702019-12-04T04:06:00.761-08:002019-12-04T04:06:00.761-08:00@vahaduo
I made some typos in the African PCA dat...@vahaduo<br /><br />I made some typos in the African PCA datasheet.<br /><br />All of the ancients marked with the TZN prefix should be marked TZA, which is the correct country code for Tanzania of course.<br /><br />If you can fix that at some stage that would be great.<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-38568290361888000052019-11-25T20:21:10.217-08:002019-11-25T20:21:10.217-08:00@ Angoliga
Done!
@ Davidski
You're welcome!...@ Angoliga<br /><br />Done!<br /><br />@ Davidski<br /><br />You're welcome! And I have another update:<br /><br />Changes in Vahaduo 19.11.1:<br /><br />ADD DIST COL option. Adds distance to target multiplied by 0.25, 0.5, 1 or 2 as a column in source. Skews results towards sources closer to target at a cost of higher overall distance.<br /><br />Generally I would not recommend this feature vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-510375933534348812019-11-19T21:35:55.348-08:002019-11-19T21:35:55.348-08:00@Vahaduo, thank you for the African additions -- m...@Vahaduo, thank you for the African additions -- much appreciated!<br /><br />To avoid any confusion with more heavily Eurasian-admixed North-Sudanese pops, could the naming of "Sudanese" samples be changed to "South-Sudanese"?Angoligahttps://www.blogger.com/profile/07998709629306722829noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-51702782434146194672019-11-19T18:52:34.603-08:002019-11-19T18:52:34.603-08:00Awesome, thanks.
Awesome, thanks.<br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-20486043602907586382019-11-19T18:38:21.647-08:002019-11-19T18:38:21.647-08:00I've updated both tools.
Changes in Vahaduo ...I've updated both tools. <br /><br />Changes in Vahaduo 19.11:<br /><br />"RUN ALL" button in the DISTANCE tab.<br /><br />Switch from a pure Monte Carlo algorithm to a two-stage hybrid approach. Now it should handle some corner case models much better. As a side-effect...<br /><br />Vahaduo is now nearly two times faster than before.<br /><br />Finally - vox populi, vox Dei - I'vahaduohttps://www.blogger.com/profile/11045408248287178465noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-72451424167087908042019-11-19T11:38:34.102-08:002019-11-19T11:38:34.102-08:00This is what the PCA tool says...
Paste Global25 ...This is what the PCA tool says...<br /><br /><i>Paste Global25 scaled coordinates here.</i><br /><br />The other one takes both scaled and original coordinates.<br /><br />Davidskihttps://www.blogger.com/profile/04637918905430604850noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-33538197424920918102019-11-19T06:22:20.947-08:002019-11-19T06:22:20.947-08:00Should we be using scaled coordinates in these two...Should we be using scaled coordinates in these two?Gillhttps://www.blogger.com/profile/11148963981733232245noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-63880073799179549162019-11-07T23:19:34.094-08:002019-11-07T23:19:34.094-08:00@ Anthony and re: "The way I see it this real...@ Anthony and re: "The way I see it this really only leaves a few options, Garino-Bor and/or Seima-Turbino or Circum-Polar explorers like BOO making their way into Netted-Ware groups like Carlos believes."<br /><br />This indeed seems to be the case.Queequeghttps://www.blogger.com/profile/04033948224040118380noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-15460274800706722122019-11-07T20:22:30.840-08:002019-11-07T20:22:30.840-08:00Did R1b V88 migrate via Italy into North Africa du...Did R1b V88 migrate via Italy into North Africa during the Neolithic ?Ric Hernhttps://www.blogger.com/profile/15069642772317562249noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-23134034547776599922019-11-07T19:05:44.515-08:002019-11-07T19:05:44.515-08:00@Gaska said..."This gets interesting, there w...@Gaska said..."This gets interesting, there will be hundreds of Kurganists looking for SNPs to prove it's V88"<br /><br />And if history is any indicator, they will succeed. On the flip side, there will be hundreds of Iberians looking for SNPs to prove it's M269 and they will fail miserably.Richard Roccahttps://www.blogger.com/profile/10137962922951473003noreply@blogger.comtag:blogger.com,1999:blog-4123559132014627431.post-10456181996015964412019-11-07T15:58:40.614-08:002019-11-07T15:58:40.614-08:00@AWood
Weren't those from the other study that...@AWood<br />Weren't those from the other study that should be coming? That with the leaked PCA.<br />Or maybe they sharing these samples, not sure.claravallensishttps://www.blogger.com/profile/05800034124919670175noreply@blogger.com