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pontussk / popstats

Population genetic summary statistics
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About the input files #1

Open guzhongru opened 8 years ago

guzhongru commented 8 years ago

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.

pontussk commented 8 years ago

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 notifications@github.com 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.

guzhongru commented 8 years ago

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 notifications@github.com 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 notifications@github.com 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.

pontussk commented 8 years ago

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 notifications@github.com 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 notifications@github.com 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 notifications@github.com 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.

langgengaw commented 5 years ago

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