A robustly rooted tree of eukaryotes reveals their excavate ancestry [Data]

Supplementary data for the manuscript: "A robustly rooted tree of eukaryotes reveals their excavate ancestry"<b>Folder/file descriptions:</b><br><br><b>Single protein datasets - unaligned: </b>contains unaligned protein sequences in FASTA format for all individual marker proteins<b>Single protein datasets - aligned: </b>contains protein sequences in FASTA format for all individual marker proteins after alignment with PREQUAL and MAFFT<br><b>Single proteins datasets - aligned and trimmed: </b>contains protein sequences in FASTA format for all individual marker proteins after alignment with PREQUAL and MAFFT<b> </b>and trimming with BMGE<br><b>Models: </b>contains all phylogenetic models generated for this study<br><b>Scripts: </b>contains all custom scripts<br><b>Phylogenomic supermatrices:</b> contains all phylogenomic supermatrices used for all analyses<br><b>Anae+ phylogenetic trees: </b>contains all phylogenetic trees estimated from the concatenated dataset that includes <i>Anaeramoeba </i>(Anae+)<br><b>Anae- phylogenetic trees: </b>contains all phylogenetic trees estimated from the concatenated dataset that does <b>not </b>include <i>Anaeramoeba</i> (Anae-)<br><b>Simulated Alignments With Gaps: </b>contains 100 alignments simulated from the consensus tree (OpiDip+/<i>Anaeramoeba</i>) with the gap pattern from the original alignment preserved<br><b>Simulated Alignments Without Gaps: </b>contains 100 alignments simulated from the consensus tree (OpiDip+/<i>Anaeramoeba</i>)<b> </b>with no gaps<b>Hemimastix_sequences.fasta: </b>FASTA file of all sequences from <i>Hemimastix kukwesjijk</i> used in the final dataset analyses