panstripe

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Issues with plot_tree_pa

3

Hello! Firstly, thank you for this amazing tool! I am having some trouble with the phylogeny and gene presence/absence plot. Specifically, the presence/absence matrix is not showing up: `> plot_tree_pa(tree...

Nautilus96

gtonkinhill

https://guangchuangyu.github.io/2016/11/align-genomic-features-with-phylogenetic-tree/

gtonkinhill

Contribution of gene gain vs gene loss?

2

Hi Gerry, thank you for this very useful tool that accounts for the different confounding factors and errors when dealing with the comparison of gene sets between species and lineages....

guillemmasfiol

Functional annotation of the exchanged genes

2

Hi Gerry, I get that Panstripe's main goal is to model the gene exchange rates, but would it be straightforward to get an idea of the function of the exchanged...

LucoDevro

Long processing times?

4

Hello! I did not find any references to processing times. I have seven bacterial genomes (3.9 Mb) and `panstripe(pa, tree)` has been running for 16 hrs on server with 32...

geboro