Update citation

Author: milot-mirdita

README.md

@@ -11,7 +11,7 @@ MMseqs2 (Many-against-Many sequence searching) is a software suite to search and
 
 [Mirdita M, Steinegger M, Breitwieser F, Soding J, Levy Karin E: Fast and sensitive taxonomic assignment to metagenomic contigs. Bioinformatics, doi: 10.1093/bioinformatics/btab184 (2021)](https://doi.org/10.1093/bioinformatics/btab184).
 
-[Kallenborn F, Chacon A, Hundt C, Sirelkhatim H, Didi K, Cha S, Dallago C, Mirdita M, Schmidt B, Steinegger M: GPU-accelerated homology search with MMseqs2. bioRxiv, doi: 10.1101/2024.11.13.623350 (2024)](https://www.biorxiv.org/content/10.1101/2024.11.13.623350v1)
+[Kallenborn F, Chacon A, Hundt C, Sirelkhatim H, Didi K, Cha S, Dallago C, Mirdita M, Schmidt B, Steinegger M: GPU-accelerated homology search with MMseqs2. Nature Methods, doi: 10.1038/s41592-025-02819-8 (2025)](https://www.nature.com/articles/s41592-025-02819-8)
 
 [![BioConda Install](https://img.shields.io/conda/dn/bioconda/mmseqs2.svg?style=flag&label=BioConda%20install)](https://anaconda.org/bioconda/mmseqs2) [![Github All Releases](https://img.shields.io/github/downloads/soedinglab/mmseqs2/total.svg)](https://github.com/soedinglab/mmseqs2/releases/latest) [![Biocontainer Pulls](https://img.shields.io/endpoint?url=https%3A%2F%2Fmmseqs.com%2Fbiocontainer.php%3Fcontainer%3Dmmseqs2)](https://biocontainers.pro/#/tools/mmseqs2) [![Build Status](https://dev.azure.com/themartinsteinegger/mmseqs2/_apis/build/status/soedinglab.MMseqs2?branchName=master)](https://dev.azure.com/themartinsteinegger/mmseqs2/_build/latest?definitionId=2&branchName=master)
 

src/commons/Parameters.cpp

@@ -2735,7 +2735,7 @@ void Parameters::setDefaults() {
             { CITATION_PLASS,    "Steinegger M, Mirdita M, Soding J: Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold. Nature Methods, 16(7), 603-606 (2019)" },
             { CITATION_SERVER,   "Mirdita M, Steinegger M, Soding J: MMseqs2 desktop and local web server app for fast, interactive sequence searches. Bioinformatics, 35(16), 2856-2858 (2019)" },
             { CITATION_TAXONOMY, "Mirdita M, Steinegger M, Breitwieser F, Soding J, Levy Karin E: Fast and sensitive taxonomic assignment to metagenomic contigs. Bioinformatics, btab184 (2021)" },
-            { CITATION_GPU,      "Kallenborn F, Chacon A, Hundt C, Sirelkhatim H, Didi K, Dallago C, Mirdita M, Schmidt B, Steinegger M: GPU-accelerated homology search with MMseqs2. bioRxiv, 2024.11.13.623350 (2024)" },
+            { CITATION_GPU,      "Kallenborn F, Chacon A, Hundt C, Sirelkhatim H, Didi K, Cha S, Dallago C, Mirdita M, Schmidt B, Steinegger M: GPU-accelerated homology search with MMseqs2. Nature Methods (2025)" },
     };
 }