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I ll make this quick in 5 simple steps, since so many people ask how to use these calculators out of GEDmatch
1- First, Download R and Dodecad DIY:
http://www.r-project.org/
https://drive.google.com/file/d/0B7A...4NjRmMTlk/view
2- Get your genome raw datas ready in your Dodecad folder in the form of :
Genome_Yourname.zip
Genome_Yourname.txt (unzipped)
Drag and drop the calculators files inside this folder as well:
Spoiler!
3- Open R and "change current folder", point to the calculator's folder
4- Since it's the first time you are using it, you gonna have to standardize your data :
5- Finally you run the calculator with this command :Enter the command : source('standardize.r')
This loads a small program that will convert your data from the
company-specific format to a common format in the next step.
- At the R prompt, enter:
a. If you have 23andMe data (either v2 or v3 chip):
standardize('johndoe.txt', company='23andMe')
b. if you have Family Finder data (Illumina chip only):
standardize('johndoe.csv', company='ftdna')
This command will write a file called 'genotype.txt' in the working directory;
this contains your genotype in a format understood by DIYDodecad.
system('DIYDodecadWin dv3.par')
Replace the "dv3" part by the name of the calculator you are currently using
For example with Dodecad "Euro7" :
system('DIYDodecadWin Euro7.par')
The program is gonna stall for a minute or two depending on the calculator (means it's working) and then you get your admix results which might look like this (not as cool of course) :
FINAL ADMIXTURE PROPORTIONS:
----------------------------
3.03% Caucasus
44.43% Northwestern
17.76% Northeastern
14.39% Southeastern
0.00% African
0.02% Far_Asian
20.36% Southwestern
CPU time = 69.56 sec
How do you Oracle then ?
Download Admix4 : https://drive.google.com/file/d/0B9o...RWTU1GdEE/view
Oracle4 file : Attachment 59268
Put the Oracle calculator file in the folder, everytime you will launch Admix4, it s gonna ask which calculator file you want to use. Once the right one is loaded, just input you final admix results, let it process it, you ll get a file named "Output1" in that same folder with your single and multi population results.
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