NodeChiSquare2tree3 failing to label tree

kSNP4 does SNP discovery and SNP annotation from whole genomes

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NodeChiSquare2tree3 failing to label tree

Forum: General Discussion

Creator: David Cleary

Created: 2017-12-05

Updated: 2017-12-05

David Cleary - 2017-12-05

Hi,
I am new to using ksnp, it is great and doing everything I need...apart from the labelling of nodes with significant snps step. When I run NodeChiSquare2tree3 I first get an error message that tree_nodeLabel.ML.tre doesnt exist - fair enough it doesnt, when I try and use one of the other other output trees it works but I get 0 significant snp labels in spite of the fact there are plenty listed in NodeChiSquares.txt. Any suggestions where I am going wrong?
For info I am running kSNP3.1_Linux_package.
Thanks very much!

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Barry G. Hall - 2017-12-05

Contact me directly at barryghall@gmail.com

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