A command line interface for easily aligning sequences.
Publisher’s description
What is AlignCli?
AlignCli is an open-source languages & sdk program for Windows from Snijderlab. It is written in Rust.
Installation and requirements
Official installers exist for 64-bit as Portable. It runs without installation (portable).
Updates and version history
The current version is 0.4.2, released on August 4, 2026. 3 versions are listed since February 27, 2024, each with links to its own installer files. That is about 1.2 releases a year.
Popularity and file types
The source code on GitHub (snijderlab/align-cli) has 17 stars. Similar programs include Go Programming Language, LLVM and Deno.
Project description on GitHub: “A CLI for pairwise alignment of sequences, using both normal and mass based alignment.”
Pros / Cons
Pros
- Open source: the code can be inspected and built by anyone
- Portable: runs without installation
Cons
- No native ARM64 build
In short: AlignCli is an open-source languages & sdk tool for 64-bit PCs.
Is AlignCli safe to download?
- The file is served by github.com, the publisher’s own domain
- The download link uses HTTPS
- A SHA256 hash is published, so you can verify the file:
39E76E4A34F8E2B11E8267EB6F2B8DBF17A02B16217568A4CDAF102B22F845B1· Open the VirusTotal report for this hash - The link has not been checked yet
- The source code is public
- ExeAtlas does not host, wrap or modify installers
Related guide: How to check a file’s SHA256 hash on Windows
Recent versions
All 3 versions ›3 versions over 2 years · about 1.2 a year
| Version | Date | Size | Files |
|---|---|---|---|
| 0.4.2Latest | August 4, 2026 | — | 64-bit Portable |
| 0.4.1 | April 16, 2025 | — | 64-bit Portable |
| 0.4.0 | February 27, 2024 | — | 64-bit Portable |
Install from the command line
Silent install ›winget install --id Snijderlab.AlignCli -eProgram files (.exe): align.exe
Related guide: How to use winget: install and update apps
Information
- Publisher
- Snijderlab
- Category
- Languages & SDKs
- Licence
- Apache-2.0
- Price
- Free
- Source code
- github.com/snijderlab/align-cli
- Written in
- Rust
- Requires
- Windows 11 / 10
- Architecture
- 64-bit
- Installer
- Portable
- Version
- 0.4.2
- Released
- August 4, 2026
- Added to the catalogue
- February 27, 2024
- Versions listed
- 3
- Updates / year
- 1.2
- GitHub stars
- 17
- GitHub forks
- 1
- Website
- github.com
- winget ID
- Snijderlab.AlignCli
Ratings and reviews
No reviews yet. Be the first to rate it.
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Frequently asked questions
Is AlignCli free?
Yes. AlignCli is open-source software under the Apache-2.0 licence.
Is AlignCli safe to download?
The download comes from github.com, which belongs to the publisher; ExeAtlas does not host or change the file. Compare its SHA256 hash with the one shown here, or open the VirusTotal report for that hash.
How do I install AlignCli with winget?
Open PowerShell or Windows Terminal and run the winget command shown on this page. winget downloads the official installer and checks its SHA256 hash before running it.
Does AlignCli run on ARM (Windows on Arm)?
There is no ARM64 build; Windows 11 on Arm can run the 64-bit version through emulation.
Where can I download an older version of AlignCli?
The versions page lists all 3 versions with links to their official installer files, back to February 27, 2024.
Can I use AlignCli without administrator rights?
Yes, it is portable: unpack and run it.
What are alternatives to AlignCli?
Go Programming Language, LLVM, Deno, CMake and Yarn. The alternatives page compares them.
