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Version 3.1.0.HMM Build #394: Commit 171382a pushed by thomaskf
6m 20s hmm
hmm
6m 20s
Fix remaining HMM defects and add debug invariants Build #393: Commit d7ef36e pushed by thomaskf
7m 10s hmm
hmm
7m 10s
Start the HMM inside the -hmm_min_stran feasible set; free marginal_tran Build #392: Commit 7e8b4f6 pushed by thomaskf
17m 17s hmm
hmm
17m 17s
Add two HMM invariants Build #391: Commit 08c487d pushed by thomaskf
16m 25s hmm
hmm
16m 25s
Restrict -tmix_opt_method to hmm and mast Build #390: Commit 74360c6 pushed by thomaskf
18m 11s hmm
hmm
18m 11s
Remove -tmix_opt_method from the command line Build #389: Commit 8452b57 pushed by thomaskf
2m 12s hmm
hmm
2m 12s
Mark the HMM-MAST section heading with === Build #388: Commit 3f1e98b pushed by thomaskf
17m 40s hmm
hmm
17m 40s
Report the HMM-MAST model in the .iqtree file Build #387: Commit 6820e08 pushed by thomaskf
4m 43s hmm
hmm
4m 43s
Do not report MAST AIC/BIC for an HMM run Build #386: Commit 76265e1 pushed by thomaskf
7m 25s hmm
hmm
7m 25s
Report HMM AIC/AICc/BIC in the .iqtree file Build #385: Commit 7cd3025 pushed by thomaskf
16m 39s hmm
hmm
16m 39s
Report the HMM scores in the .iqtree file Build #384: Commit c50bb29 pushed by thomaskf
16m 23s hmm
hmm
16m 23s
Remove the -hmmster{tm} type-dependent transition model Build #383: Commit cf6c184 pushed by thomaskf
16m 56s hmm
hmm
16m 56s
Fix -hmmster{gm} transition matrix estimation Build #382: Commit 2db0653 pushed by thomaskf
10m 59s hmm
hmm
10m 59s
Fix -hmmster{gm} transition matrix estimation Build #381: Commit bf42efa pushed by thomaskf
29m 37s fix_hmmgm_transition_em
fix_hmmgm_transition_em
29m 37s
Fix -hmmster{gm} transition matrix estimation Build #380: Commit da49b1f pushed by thomaskf
1m 57s fix_hmmgm_transition_em
fix_hmmgm_transition_em
1m 57s
Fix -hmmster{gm} transition-matrix EM Build #379: Commit fe8726a pushed by thomaskf
28m 40s fix_hmmgm_transition_em
fix_hmmgm_transition_em
28m 40s
feature request #195, allow to do bootstrap with 3 sequences, change … Build #378: Commit 8977d31 pushed by thomaskf
29m 0s master
master
29m 0s
Report optimized GTR20 exchangeabilities to .iqtree for 3Di/TEA data Build #377: Commit 22600d0 pushed by thomaskf
28m 28s 3di
3di
28m 28s
Fix NEXUS partition-file round-trip parsing for QMaker pass-2 Build #376: Commit 18d5f7f pushed by thomaskf
28m 3s 3di
3di
28m 3s
Revert SuperAlignmentUnlinked::buildPattern to the previous version (… Build #375: Commit 0cc0e3e pushed by thomaskf
28m 53s 3di
3di
28m 53s
Revert SuperAlignmentUnlinked::buildPattern to previous version (fixe… Build #374: Commit eb65524 pushed by thomaskf
14m 21s 3di
3di
14m 21s
Add --min/max-rate-exchange and --no-opt-restart options Build #373: Commit 0370f5f pushed by thomaskf
28m 5s 3di
3di
28m 5s
Branch model: anchor buffer likelihood at root edge; honor -prec in f… Build #372: Commit a8f8236 pushed by thomaskf
28m 14s ns_qmaker_clean
ns_qmaker_clean
28m 14s
SBA: change default --sba_draws from 100 to 1 Build #371: Commit cf8d2cc pushed by thomaskf
16m 5s codonmix_sba
codonmix_sba
16m 5s
SBA: add --sba_persite (off by default) to opt-in the per-site output… Build #370: Commit b30e12e pushed by thomaskf
7m 17s codonmix_sba
codonmix_sba
7m 17s