jalview ☆

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Description:
Multiple sequence alignment editor, visualiser, analysis and figure generator

Type: Cask | Latest Version: 2.11.5.1@0 | Tracked Since: Dec 28, 2025

Links: Homepage | formulae.brew.sh

Category: Other

Tags: bioinformatics sequence-alignment visualization genomics java

Install: brew install --cask jalview

About:
Jalview is a robust platform for multiple sequence alignment analysis and editing. It integrates widely used tools like ClustalW and T-COFFEE for alignment and provides powerful visualization features. Its core value lies in enabling detailed analysis and creating publication-quality figures directly from alignment data.

Key Features:

Visualization of alignments with phylogenetic trees and consensus
Integration of analysis tools (ClustalW, T-COFFEE, etc.)
Publication-quality figure export
Support for various sequence formats (FASTA, PIR, etc.)
Annotation and editing capabilities

Use Cases:

Analyzing protein or DNA sequence conservation
Preparing figures for scientific publications
Teaching bioinformatics concepts

Alternatives:

AliView – Lightweight viewer, less feature-rich
UGENE – Comprehensive suite, includes non-alignment tools

Version History

Detected	Version	Rev	Change	Commit
Aug 26, 2025 10:11pm	2.11.5.0	0	VERSION_BUMP	01c5678a
Aug 5, 2025 2:20pm	2.11.4.0	0	VERSION_BUMP	74b5c22b