This repository contains tests of my IQ-TREE 3 branch whose MixtureFinder (Ren et al., 2024) was extended to codon, binary, multistate, and amino acid data. See the pull request for details.
- Yamasaki2015.18S28S.Subsampled.fas: A subsample of the dataset of Yamasaki et al. (2015) consisting of 18S and 28S rRNA sequences. It was used for the test of the DNA MixtureFinder.
- Yamasaki2015.18S28S.RY.Subsampled.fas: An RY recoded (e.g., Braun & Kimball, 2021) subsample of the dataset of Yamasaki et al. (2015) consisting of 18S and 28S rRNA sequences. It was used for the test of the binary MixtureFinder.
- Khalturin2022.WoGaps.Subsampled.fasta: A subsample of the gapless phylogenomic dataset of Khalturin et al. (2022). It was used for the test of the amino acid MixtureFinder.
- Khalturin2022.WoGaps.recSR4.Subsampled50.fasta: An SR4 (Susko & Roger, 2007) recoded subsample of the gapless phylogenomic dataset of Khalturin et al. (2022) with 50 sites. It was used for the tests of the multistate MixtureFinder.
- Khalturin2022.WoGaps.recSR4.Subsampled1000.fasta: An SR4 (Susko & Roger, 2007) recoded subsample of the gapless phylogenomic dataset of Khalturin et al. (2022) with 1000 sites. It was used for the tests of the multistate MixtureFinder.
- Sorensen2006.H3.Aligned.NT.Subsampled.fas; A subsample of the histone H3 alignment of Sørensen et al. (2006). The dataset was aligned by MACSE v2.07 (Ranwez et al., 2018) to account for the codon structure. The dataset was used for the test of the codon MixtureFinder.
- MixtureFinder: Tests of MixtureFinder for various data types.