CIAlign: A highly customisable command line tool to clean, interpret and visualise multiple sequence alignments.

ABSTRACT:

Background

Throughout biology, multiple sequence alignments (MSAs) form the basis of much investigation into biological features and relationships. These alignments are at the heart of many bioinformatics analyses. However, sequences in MSAs are often incomplete or very divergent, which can lead to poor alignment and large gaps. This slows down computation and can impact conclusions without being biologically relevant. Cleaning the alignment by removing common issues such as gaps, divergent sequences, large insertions and deletions and poorly aligned sequence ends can substantially improve analyses. Manual editing of MSAs is very widespread but is time-consuming and difficult to reproduce.

Results

We present a comprehensive, user-friendly MSA trimming tool with multiple visu

SUBMITTER: Tumescheit C 

PROVIDER: S-EPMC8932311 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature