@article {Mirdita419895, author = {Milot Mirdita and Martin Steinegger and Johannes S{\"o}ding}, title = {MMseqs2 desktop and local web server app for fast, interactive sequence searches}, elocation-id = {419895}, year = {2018}, doi = {10.1101/419895}, publisher = {Cold Spring Harbor Laboratory}, abstract = {The MMseqs2 desktop and web server app facilitates interactive sequence searches through custom protein sequence and profile databases on personal workstations. By eliminating MMseqs2{\textquoteright}s runtime overhead, we reduced response times to a few seconds at sensitivities close to BLAST.Availability and implementation The app is easy to install for non-experts. Source code, prebuilt desktop app packages for Windows, macOS and Linux, Docker images for the web server application, and a demo web server are available at https://search.mmseqs.com.Contact martin.steinegger{at}mpibpc.mpg.de or soeding{at}mpibpc.mpg.de}, URL = {https://www.biorxiv.org/content/early/2018/09/18/419895}, eprint = {https://www.biorxiv.org/content/early/2018/09/18/419895.full.pdf}, journal = {bioRxiv} }