Fitting Linear Mixed-Effects Models Using<b>lme4</b>
Maximum likelihood or restricted maximum likelihood (REML) estimates of the parameters in linear mixed-effects models can be determined using the lmer function in the lme4 packa...
Publications
Explore 2,007 academic publications
Showing 12 of
2,007 publications
Scikit-learn: Machine Learning in Python
Scikit-learn is a Python module integrating a wide range of state-of-the-art machine learning algorithms for medium-scale supervised and unsupervised problems. This package focu...
Fast and accurate short read alignment with Burrows–Wheeler transform
Abstract Motivation: The enormous amount of short reads generated by the new DNA sequencing technologies call for the development of fast and accurate read alignment programs. A...
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
Although genomewide RNA expression analysis has become a routine tool in biomedical research, extracting biological insight from such information remains a major challenge. Here...
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks
Cytoscape is an open source software project for integrating biomolecular interaction networks with high-throughput expression data and other molecular states into a unified con...
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
We report a major update of the MAFFT multiple sequence alignment program. This version has several new features, including options for adding unaligned sequences into an existi...
MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets
Abstract We present the latest version of the Molecular Evolutionary Genetics Analysis (M ega ) software, which contains many sophisticated methods and tools for phylogenomics a...