San Emmanuel James

Error running treetime; RecursionError: maximum recursion depth exceeded while calling a Python object

2

Hallo TT team, I'm getting this error running treetime locally on my Mac and on the server (CentOS 7). treetime clock --tree new_tree3.nwk --dates dates.csv --aln nextalign.aligned.new_tree3.fasta --reroot "oldest" 0.00...

mid-sequence STOP codon in the sequence

1

Hi Chase, Thanks for the useful tool, I see this warning, ## WARNING: Please be aware that there is a mid-sequence STOP codon in the sequence GU280_gp01|13483. ## Please check...

Hi Jane, This is a great tutorial you have put together. Thank you! I run; Rscript /usr/local/biotools/bacterialGWAS/kmerGWAS/kmerAnalysis.R -dataFile \ data/fus300.kmerfiles.txt -prefix fus300 \ -removeKmerTxt FALSE -minCov 5 -externalSoftware data/dependencies.txt stdout:...

Hello, I have been trying to figure out how to get the dates on an MCC tree like this using FigTree in vain. Could you please advise? 

Hello, How would I reproduce this with ggtreeExtra?