When comparing Cactus, the input evolutionary tree (phylogenetic tree) is not very accurate

[helloworldABCD1234]

When comparing Cactus, the input evolutionary tree (phylogenetic tree) is not very accurate, and some species are inaccurate. For example, the evolutionary relationships of plant species do not match, but overall classification is also correct. Will such an evolutionary tree affect the Cactus comparison results.

Help me plz, Anyone understand?

[glennhickey]

Cactus is robust to small inaccuracies in the input tree as discussed in the Prgressive Cactus paper. A very wrong tree could indeed have consequences on the alignment accuracy though.

[helloworldABCD1234]

It is not inherently incorrect for different species, even those within the same plant group, to exhibit varying evolutionary timelines. However, the general classification of these species can still be valid. This suggests that while there may be differences in evolutionary history, the overarching taxonomic categories remain accurate.

Collaborator

[helloworldABCD1234]

Cactus is robust to small inaccuracies in the input tree as discussed in the Prgressive Cactus paper. A very wrong tree could indeed have consequences on the alignment accuracy though.

Is it very wrong for species to have different evolutionary times, such as different species in the same plant group, but the overall classification is still correct, such as the correct category, which means there are differences between species？

[glennhickey]

I don't really understand you, but if the question is about branch lengths, see

Q: How exactly does Cactus use the branch lengths in the input tree?

in the Progressive Cactus FAQ

[helloworldABCD1234]

I don't really understand you, but if the question is about branch lengths, see

Different types are correct, but there are differences between the same species. Does using such an evolutionary tree have a significant impact?