The paper introduces trimAI, a tool designed for automated alignment trimming in large-scale phylogenetic analyses. The authors highlight the importance of removing poorly aligned regions from multiple sequence alignments (MSAs) to enhance the quality of subsequent analyses. trimAI is particularly suited for handling large datasets, as it can consider various parameters such as the proportion of sequences with gaps, amino acid similarity, and consistency across multiple alignments. The tool can automatically select the most appropriate parameters to optimize the signal-to-noise ratio in phylogenetic analyses. trimAI is written in C++ and is available for download and online use through the Phylemon web server. The authors demonstrate the effectiveness of trimAI through benchmarking and real-world datasets, showing significant improvements in phylogenetic accuracy compared to other methods like Gblocks.The paper introduces trimAI, a tool designed for automated alignment trimming in large-scale phylogenetic analyses. The authors highlight the importance of removing poorly aligned regions from multiple sequence alignments (MSAs) to enhance the quality of subsequent analyses. trimAI is particularly suited for handling large datasets, as it can consider various parameters such as the proportion of sequences with gaps, amino acid similarity, and consistency across multiple alignments. The tool can automatically select the most appropriate parameters to optimize the signal-to-noise ratio in phylogenetic analyses. trimAI is written in C++ and is available for download and online use through the Phylemon web server. The authors demonstrate the effectiveness of trimAI through benchmarking and real-world datasets, showing significant improvements in phylogenetic accuracy compared to other methods like Gblocks.