MMseqs2
A command-line suite for searching, clustering, and assigning taxonomy to large protein and nucleotide sequence sets.
By The MMseqs2 contributors
Alternatives
About MMseqs2
MMseqs2 searches and clusters large protein and nucleotide sequence sets, with workflows for taxonomy assignment and profile searches. It accepts FASTA and FASTQ files and can work with public reference databases such as UniProtKB/Swiss-Prot.
The software runs on Linux and macOS, with beta support for Windows through Cygwin. It can use multiple CPU cores and supports GPU-accelerated searches on compatible hardware.
Strengths
- Searches and clusters protein and nucleotide sequences
- Includes workflows for taxonomy assignment and profile searches
- Supports CPU and compatible GPU search
Limitations
- Windows support is beta and uses Cygwin
- GPU acceleration requires compatible hardware
Details
- Pricing
- FreeFree and open source under the MIT license.
- License
- MIT
- Developer
- The MMseqs2 contributors
- Platforms
- Windows, macOS, Linux, Command line
- How it runs
- Downloadable app
- Best suited for
- Researchers working with large sequence datasets
- Categories
- CLI tools
- Last verified
- Added
- Provenance
- Selected from the Homebrew formula