Abstract
Spruceup: fast and flexible identification, visualization, and removal of outliers from large multiple sequence alignments
Highlights
Summary spruceup is an open-source Python software package that utilizes a novel algorithm and allows flexible identification, visualization, and removal of abnormal sequences from multiple sequence alignments (MSAs)
The spruceup algorithm aims to solve the problem of individual poorly aligned sequences rarely addressed by other alignment trimming tools
MSAs used for inference of evolutionary relationships should contain homologous nucleotides or amino acids from different samples
Summary
Summary spruceup is an open-source Python software package that utilizes a novel algorithm and allows flexible identification, visualization, and removal of abnormal sequences from multiple sequence alignments (MSAs). The spruceup algorithm aims to solve the problem of individual poorly aligned sequences rarely addressed by other alignment trimming tools. MSAs used for inference of evolutionary relationships should contain homologous nucleotides or amino acids (alignment columns) from different samples (alignment rows).
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