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Published 20 hours ago • verified publisher icon pontussk

About the input files

Open guzhongru opened this issue 9 years ago • 4 comments

Hi, I am not clear about the input files. For example, I have Pop1, Pop2, Pop3 and Outgroup. I want to calculate D-statistics (Pop1 , Pop2 ; Pop3 , Outgroup). Do i need to put these four populations in one tped file? or in 4 tped files ? Thanks.

guzhongru avatar Dec 09 '15 11:12 guzhongru

Hi,

Thanks for your interest in popstats! Yes you need to put all the four populations in a single tped and tfam file.

Best, Pontus

On Wed, Dec 9, 2015 at 12:07 PM, guzhongru [email protected] wrote:

Hi, I am not clear about the input files. For example, I have Pop1, Pop2, Pop3 and Outgroup. I want to calculate D-statistics (Pop1 , Pop2 ; Pop3 , Outgroup). Do i need to put these four populations in one tped file? or in 4 tped files ? Thanks.

— Reply to this email directly or view it on GitHub https://github.com/pontussk/popstats/issues/1.

pontussk avatar Dec 10 '15 16:12 pontussk

Hi,Pontus, please can you send me a example of input files ? I don’t know whether my results getting from popstats is right or not. Thanks.

Best, Zhongru

On 10 Dec 2015, at 16:34, pontussk [email protected] wrote:

Hi,

Thanks for your interest in popstats! Yes you need to put all the four populations in a single tped and tfam file.

Best, Pontus

On Wed, Dec 9, 2015 at 12:07 PM, guzhongru [email protected] wrote:

Hi, I am not clear about the input files. For example, I have Pop1, Pop2, Pop3 and Outgroup. I want to calculate D-statistics (Pop1 , Pop2 ; Pop3 , Outgroup). Do i need to put these four populations in one tped file? or in 4 tped files ? Thanks.

— Reply to this email directly or view it on GitHub https://github.com/pontussk/popstats/issues/1.

— Reply to this email directly or view it on GitHub https://github.com/pontussk/popstats/issues/1#issuecomment-163680023.

guzhongru avatar Dec 11 '15 00:12 guzhongru

Hi Zhongru,

You should be able to find an example here: http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml#tr

Pontus

On Thu, Dec 10, 2015 at 7:22 PM, guzhongru [email protected] wrote:

Hi,Pontus, please can you send me a example of input files ? I don’t know whether my results getting from popstats is right or not. Thanks.

Best, Zhongru

On 10 Dec 2015, at 16:34, pontussk [email protected] wrote:

Hi,

Thanks for your interest in popstats! Yes you need to put all the four populations in a single tped and tfam file.

Best, Pontus

On Wed, Dec 9, 2015 at 12:07 PM, guzhongru [email protected] wrote:

Hi, I am not clear about the input files. For example, I have Pop1, Pop2, Pop3 and Outgroup. I want to calculate D-statistics (Pop1 , Pop2 ; Pop3 , Outgroup). Do i need to put these four populations in one tped file? or in 4 tped files ? Thanks.

— Reply to this email directly or view it on GitHub https://github.com/pontussk/popstats/issues/1.

— Reply to this email directly or view it on GitHub < https://github.com/pontussk/popstats/issues/1#issuecomment-163680023>.

— Reply to this email directly or view it on GitHub https://github.com/pontussk/popstats/issues/1#issuecomment-163794096.

pontussk avatar Dec 16 '15 20:12 pontussk

Dear Pontus,

Thank you for providing us the link for the example input file in the previous comment. However, I have just checked but the link is not working anymore. Would you please share us another link which containing the example input file of this algorithm? Thank you very much!

best regards,

Langgeng

langgengaw avatar Mar 27 '19 09:03 langgengaw