PDA

View Full Version : Are there any good mapping tools for autosomal results?



Theconqueror
03-08-2016, 09:35 PM
I was wondering if there were any open source out there to replicate FTDNA and 23andme autosomal maps. MDLP, DODECAD, and Eurogens calculators seems veyr interesting but it would be even better if we could produce maps.

MitchellSince1893
03-08-2016, 11:38 PM
Probably not what you are looking for, but many of us have used gedmatch results to get geolocations via triangulation of Oracle results. For example. Say your closest oracle distance is 55% Spanish and 45% Hungarian. Use this tool to weight it as such. http://www.geomidpoint.com/. Enter address as Spain and "other weight" as 55. Add another point for Hungary with weight of 45. Make note of the midpoint location.
Then repeat the process for your next best match.

Once you have a few midpoints, get the midpoint of your midpoints. You could even weight these by using the inverse of the distance.
For example
55% Spanish 45% Hungarian distance of 2.5 would be weighted as 1/2.5 or .4. You could multiply it by 100 to get a weight of 40.
If your next best oracle was
French 60% Bulgarian 40% with distance of 3.0 then weight this midpoint at 1/3 or.33 multiplied by 100 to get a weight of 33.

Using this approach I typically come out in Denmark, Northern Germany, the Netherlands, and the North Sea. In other words Old Saxony is probably my autosomal homeland.

dp
03-09-2016, 12:18 AM
I was wondering if there were any open source out there to replicate FTDNA and 23andme autosomal maps. MDLP, DODECAD, and Eurogens calculators seems veyr interesting but it would be even better if we could produce maps.

check out:
http://www.anthrogenica.com/showthread.php?1778-Mapping-Your-Location-%28GEDmatch-calculators%29/page21&highlight=autosomal+oracle

firemonkey
03-09-2016, 01:17 PM
Mixed results using geo midpoint

Eurogenes k13- Offaly, Ireland
Eurogenes k 15 - Airdrie,Scotland
MDLP K23- Off NE English coast
MDLP World 22- Horavce, Slovakia
MDLP World- Off coast of Norway
Dodecad V3- Off coast of NE Scotland

MitchellSince1893
03-09-2016, 05:01 PM
Mixed results using geo midpoint

Eurogenes k13- Offaly, Ireland
Eurogenes k 15 - Airdrie,Scotland
MDLP K23- Off NE English coast
MDLP World 22- Horavce, Slovakia
MDLP World- Off coast of Norway
Dodecad V3- Off coast of NE Scotland

The World admixtures give me outlyer results too. If you are mainly European then I wouldn't give them as much weight. Otherwise you have 2 Scotlands, 1 NE English and 1 Irish, which would put you in or near southern Scotland.

Here is a screen shot of my results using this technique.
Eurogenes K15: Yorkshire
Eurogenes K13: Denmark
Dodecade K7b: East Anglia
Dodecade K12b: Netherlands/North Rhine-Westphalia Germany
Dodecade V3: Rhineland, Hesse, Northern Bavaria
MDLPK12: Hesse, Germany
MDLPK13: North Sea, Denmark, and Netherlands
Punt K11: Netherlands/Lower Saxony & North Rhine-Westphalia Germany.

8086

And zoomed in. For me the PuntK11, DodecadeK12b, and some of the MDLPK13 points cluster along the Netherlands/Germany border
8087

Overall it looks rather Anglo-Saxon, both in the British Isles and the Continental homeland

firemonkey
03-09-2016, 07:24 PM
puntDNAL K13- Wöllstadt, Germany
puntDNAL K15- Off coast of NE Scotland
puntDNAL K 11- Louth, Ireland
puntDNAL K1O - Off coast of East Scotland
puntDNAL K12- Off coast of South England
Gedrosia 11- Vogelsang-Warsin, Germany
MDLP K13- Off coast of South England
Eurasian CHG - Öreglak, Dózsa György u. 1, 8697 Hungary

Tolan
03-10-2016, 03:48 AM
there is SPA (only with 23andme file)
http://genetics.cs.ucla.edu/spa/23andme.html

I seem to remember (in 2013) that for many the tool was not very reliable or very accurate, while for me it was quite good.
There were two models.
Eurogenes-eurasian-cline.model was done by Davidsky, if I remember correctly!
But I can not able to find the link

http://gen3553.pagesperso-orange.fr/ADN/SPA.png

psaglav
03-10-2016, 08:40 AM
Probably not what you are looking for, but many of us have used gedmatch results to get geolocations via triangulation of Oracle results. For example. Say your closest oracle distance is 55% Spanish and 45% Hungarian. Use this tool to weight it as such. http://www.geomidpoint.com/. Enter address as Spain and "other weight" as 55. Add another point for Hungary with weight of 45. Make note of the midpoint location.
Then repeat the process for your next best match.

Once you have a few midpoints, get the midpoint of your midpoints. You could even weight these by using the inverse of the distance.
For example
55% Spanish 45% Hungarian distance of 2.5 would be weighted as 1/2.5 or .4. You could multiply it by 100 to get a weight of 40.
If your next best oracle was
French 60% Bulgarian 40% with distance of 3.0 then weight this midpoint at 1/3 or.33 multiplied by 100 to get a weight of 33.

Using this approach I typically come out in Denmark, Northern Germany, the Netherlands, and the North Sea. In other words Old Saxony is probably my autosomal homeland.

I couldn't go into such detail (didn't do the inverse part) but did the various midpoints and then midpoints of those midpoints and in all of them the center seems to be around Romania and Ukraine, that is Bessarabia. Interesting that one gets so many different results but the midpoint more or less seems to be the same give or take a few hundred kilometres. Doug MacDonald had placed me in Romania too in his analysis.

firemonkey
03-10-2016, 09:30 AM
puntDNAL K13- Wöllstadt, Germany
puntDNAL K15- Off coast of NE Scotland
puntDNAL K 11- Louth, Ireland
puntDNAL K1O - Off coast of East Scotland
puntDNAL K12- Off coast of South England
Gedrosia 11- Vogelsang-Warsin, Germany
MDLP K13- Off coast of South England
Eurasian CHG - Öreglak, Dózsa György u. 1, 8697 Hungary



Taking all off coast of Netherlands. Using just UK and Ireland entries-Lancashire

anglesqueville
03-10-2016, 09:35 AM
there is SPA (only with 23andme file)
http://genetics.cs.ucla.edu/spa/23andme.html

I seem to remember (in 2013) that for many the tool was not very reliable or very accurate, while for me it was quite good.
There were two models.
Eurogenes-eurasian-cline.model was done by Davidsky, if I remember correctly!
But I can not able to find the link

http://gen3553.pagesperso-orange.fr/ADN/SPA.png

Thanks friend, I had completely forgotten this nice tool (if I ever knew it, don't recall). It says I'm a cold fish alone in the north sea:
8095. I will try it with my clan!

anglesqueville
03-10-2016, 10:45 AM
Done! Pretty nice tool, for a global "ethnic make-up", better than many so called "oracles":
8096

MitchellSince1893
03-10-2016, 02:12 PM
My SPA result was in Germany on the Czech border...further east than most other admixture results.

Theconqueror
03-10-2016, 03:04 PM
So you are:

Halibut_RISE567 + Cod_RISE432 + Sealion_RISE888 +.....



Done! Pretty nice tool, for a global "ethnic make-up", better than many so called "oracles":
8096

anglesqueville
03-10-2016, 03:30 PM
So you are:

Halibut_RISE567 + Cod_RISE432 + Sealion_RISE888 +.....

hehe! No, each star on the map is an individual of my clan. I am myself one of the fishes in the North Sea.

MitchellSince1893
03-10-2016, 03:50 PM
My SPA result was in Germany on the Czech border...further east than most other admixture results.

This is weird. I did this a couple of years ago and came out in "in Germany on the Czech border"

But I just did it again using the europe.tar and came out here...to the east of Essex, England. I wonder what has changed.
FYI this point isn't too far from my McDonald pt which is on the North Sea coast of the Netherlands.

8097

The World model had me in North Atlantic south of Newfoundland
8098

Here's a link to my post/map about it back in 2013 http://www.anthrogenica.com/showthread.php?1334-Spatial-Ancestry-Analysis-(SPA)-results&p=18715&viewfull=1#post18715

anglesqueville
03-10-2016, 04:18 PM
By the way, that works very well with standardized genomes, so you can run it with ftdna datas. With western europeans that seems to work impressively. With ancients, not so obvious: Karelia_HG is put between Norway and Greenland (he's a fish as well). Do you know whether there is a thread devoted to this tool? If not, it could be interesting to open one. For those who are lacking new calculators, including myself (as obviously my own tries don't give convincing results).

edit: I must read better, there is actually a thread for SPA.

Reith
03-10-2016, 05:23 PM
I did my top four populations sharing and then used those 4 waypoints. I wound up just south of Malmö, in a triangle between Sweden, Denmark and Germany.

AJL
03-11-2016, 07:03 PM
Once you have a few midpoints, get the midpoint of your midpoints.

Incredibly useful site and idea, thanks.

8103

MitchellSince1893
03-11-2016, 08:09 PM
I did my top four populations sharing and then used those 4 waypoints. I wound up just south of Malmö, in a triangle between Sweden, Denmark and Germany.

Based on your flags it appears to be a good fit for you.

anglesqueville
03-11-2016, 09:22 PM
About Spatial Ancestry analysis (SPA), I don't know if the academic underlying text has been mentioned on the forum. Two is better than none: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3592563/ . Don't forget to download the supplementary informations, with a very interesting "Supplementary Table 3: Genes with extreme gradients detected only by SPA." The chromosome 6's fans (including myself) will find there some news about some snps, that might interest them:
HLA-DPB1 region rs9268560 3.67652 chr6:32497490
HLA-B region rs2517510 3.50633 chr6:31138101
SCAND3,ZNF192,ZSCAN16,ZSCAN23 rs6903535 2.74179 chr6:28525201

Reith
03-11-2016, 10:27 PM
Based on your flags it appears to be a good fit for you.

That was K15, K13 has me on the border of Denmark and Northern Germany