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-m MFP = default?

modelfinder2things to do before benchmarking modelfinder2things to do before benchmarking modelfinder2

Status: Open.

#514 In iqtree/iqtree2;

· roblanf opened on Jan 28, 2026

Partition merging .best_model format issues

modelfinder2things to do before benchmarking modelfinder2things to do before benchmarking modelfinder2

Status: Open.

#513 In iqtree/iqtree2;

· roblanf opened on Jan 28, 2026

Iqtree not producing splits.nex file

Status: Open.

#509 In iqtree/iqtree2;

· ts-dangelo opened on Dec 22, 2025

Dear Fabricia,

Status: Open.

#504 In iqtree/iqtree2;

· leandrosenadefigueiredo-lgtm opened on Dec 5, 2025

IQ-TREE CRASHES WITH SIGNAL ABORTED

Status: Open.

#493 In iqtree/iqtree2;

· sttongjai opened on Oct 8, 2025

Likelihood mapping: quartet mapping reduced to unique quartets but iqtree performs more calculations than the number of unique quartets

Status: Open.

#489 In iqtree/iqtree2;

· AlesBucek opened on Sep 17, 2025

Rooted Tree Input for Ancestral Reconstruction

Status: Open.

#481 In iqtree/iqtree2;

· dafnago2 opened on Aug 20, 2025

'-bnni' causes 'core dump' when using '-S' to reconstruct trees in a folder

Status: Open.

#479 In iqtree/iqtree2;

· bingli8899 opened on Jul 25, 2025

Is it possible to estimate profile mixtures under LG or any empirical exchangeability matrix using iqtree?

Status: Open.

#477 In iqtree/iqtree2;

· evolbeginner opened on Jul 11, 2025

unable to load server

Status: Open.

#474 In iqtree/iqtree2;

· jmajanja opened on Jun 17, 2025

Time tree reconstruction - branch distances seem off

Status: Open.

#471 In iqtree/iqtree2;

· alanxelena opened on Jun 10, 2025

ERROR: phylotree.cpp:4072 XXX failed

Status: Open.

#469 In iqtree/iqtree2;

· quliping opened on Jun 3, 2025