MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is free and open source software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multiple cores and servers and exhibits very good scalability. MMseqs2 can run 10000 times faster than BLAST. At 100 times its speed it achieves almost the same sensitivity. It can perform profile searches with the same sensitivity as PSI-BLAST at over 400 times its speed.
See versions which are available:
$ module avail mmseqs2
Load one version into your environment and run it:
$ module load mmseqs2/17-b804f $ mmseqs
Notes from the sysadmin during installation:
$ cd /tmp $ wget https://github.com/soedinglab/MMseqs2/releases/download/17-b804f/mmseqs-linux-avx2.tar.gz $ sudo mkdir -p /export/apps/mmseqs2 $ sudo mkdir -p /export/apps/mmseqs2/17-b804f $ sudo tar xf mmseqs-linux-avx2.tar.gz --strip=1 -C /export/apps/mmseqs2/17-b804f