Silly question for a very usefull package

[jblamyatifremer]

Hi Jisca,

I am sure that you have a R trick to access to dam object stored in compareOUT$Counts...

get assignation statistic for dam

compareOUT <- PedCompare(Ped1=ped1,Ped2=SeqOUT$Pedigree)
dam <- compareOUT$Counts[1] ## NOT WORKING
dam <- unlist(compareOUT$Counts)[1] ## NOT WORKING

best regards,

JB

[JiscaH]

Hello, There are no stupid questions! (only not-sufficiently-clear help files...) compareOUT$Counts is what R calls an 'array', and you get the dam part as dam <- compareOUT$Counts[, , "dam"] # or dam <- compareOUT$Counts[, , 1] Glad you find the package useful! Out of personal curiosity - what species are you working on? cheers, Jisca

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On 17/07/2017 17:49, jblamyatifremer wrote: Hi Jisca, I am sure that you a R trick to access to dam object stored in compareOUT$Counts... get assignation statistic for dam compareOUT <- PedCompare(Ped1=ped1,Ped2=SeqOUT$Pedigree) dam <- compareOUT$Counts[1] ## NOT WORKING dam <- unlist(compareOUT$Counts)[1] ## NOT WORKING best regards, JB — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#2>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AQwkHd3iML2g9lTLgsSL0EKvHcas7RX8ks5sO4-KgaJpZM4OaO4->.

[jblamyatifremer]

Perfect !
I am working on oysters (successive hermaphrodite) populations or bi-parental cross. Most of the time, we do have an observed pedigree, and we are now accumulating HTS data. I am measuring the amount of putative errors in the observed pedigree.
I am also planning to use your package to design lower snp panel density for assignations, imputations from public array.
I close this thread.
Thanks you again for your time.