Efficiency of ab-initio total energy calculations for metals and semiconductors using a plane-wave basis set | Computational Materials Science | 1996 | 41.7K |
The Sequence Alignment/Map format and SAMtools | Bioinformatics | 2009 | 30.8K |
Fast Parallel Algorithms for Short-Range Molecular Dynamics | Journal of Computational Physics | 1995 | 27.3K |
UCSF Chimera--a visualization system for exploratory research and analysis | Journal of Computational Chemistry | 2004 | 26.5K |
Fast and accurate short read alignment with Burrows-Wheeler transform | Bioinformatics | 2009 | 26.1K |
Trimmomatic: a flexible trimmer for Illumina sequence data | Bioinformatics | 2014 | 24.7K |
MrBayes 3: Bayesian phylogenetic inference under mixed models | Bioinformatics | 2003 | 23.3K |
Clustal W and Clustal X version 2.0 | Bioinformatics | 2007 | 21.3K |
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data | Bioinformatics | 2010 | 19.6K |
Semiempirical GGA-type density functional constructed with a long-range dispersion correction | Journal of Computational Chemistry | 2006 | 19.1K |
STAR: ultrafast universal RNA-seq aligner | Bioinformatics | 2013 | 18.1K |
MRBAYES: Bayesian inference of phylogenetic trees | Bioinformatics | 2001 | 17.8K |
MODELTEST: testing the model of DNA substitution | Bioinformatics | 1998 | 17.5K |
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies | Bioinformatics | 2014 | 17.4K |
General atomic and molecular electronic structure system | Journal of Computational Chemistry | 1993 | 17.2K |
Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes | Journal of Computational Physics | 1977 | 15.6K |
Search and clustering orders of magnitude faster than BLAST | Bioinformatics | 2010 | 13.4K |
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations | Journal of Computational Chemistry | 1983 | 13K |
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models | Bioinformatics | 2006 | 12.7K |
Scalable molecular dynamics with NAMD | Journal of Computational Chemistry | 2005 | 12.7K |
SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing | Journal of Computational Biology | 2012 | 12K |
BEDTools: a flexible suite of utilities for comparing genomic features | Bioinformatics | 2010 | 11.8K |
Haploview: analysis and visualization of LD and haplotype maps | Bioinformatics | 2005 | 11.8K |
AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading | Journal of Computational Chemistry | 2010 | 11.7K |
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility | Journal of Computational Chemistry | 2009 | 11.7K |