COMER
COMER
COMER: Protein remote homology search
COMER is a protein sequence alignment tool designed for protein remote homology detection. It accepts a multiple sequence alignment as input and converts it into the profile to search a profile database for statistically significant similarities. Version 2 harnesses the power of GPUs to conduct very fast sensitive homology searches. COMER is licensed under the GNU GP License, version 3. Please refer to the README file for instructions on how to use the software.
The following directory contains databases of COMER profiles to be searched against with COMER. Any profile from a database can be easily extracted and, e.g., searched with COMER against the database (see the `README' file in the COMER installation package).
COMER is also available as a web server.
References:
Dapkunas, J. & Margelevicius, M. (2023) The COMER web server for protein analysis by homology. Bioinformatics 39(1), btac807
Margelevicius, M. (2020) COMER2: GPU-accelerated sensitive and specific homology searches. Bioinformatics 36(11), 3570–3572.
Margelevicius, M. (2019) Estimating statistical significance of local protein profile-profile alignments. BMC Bioinformatics 20, 419.
Margelevičius M. (2018) Low-complexity add-on scores for protein remote homology search with COMER. Bioinformatics 34(12), 2037-2045.
Margelevičius M. (2016) Bayesian nonparametrics in protein remote homology search. Bioinformatics 32(18), 2744–2752.