NWChem: Open Source High-Performance Computational Chemistry. The NWChem development strategy is focused on providing new and essential scientific capabilities to its users in the areas of kinetics and dynamics of chemical transformations, chemistry at interfaces and in the condensed phase.
最近更新: 3年多前RepeatModeler is a de novo transposable element (TE) family identification and modeling package. At the heart of RepeatModeler are three de-novo repeat finding programs ( RECON, RepeatScout and LtrHarvest/Ltr_retriever ) which employ complementary computational methods for identifying repeat element boundaries and family relationships from sequence data. RepeatModeler assists in automating the runs of the various algorithms given a genomic database, clustering redundant results, refining and classifying the families and producing a high quality library of TE families suitable for use with RepeatMasker and ultimately for submission to the Dfam database ( http://dfam.org ).
最近更新: 3年多前CP2K is a quantum chemistry and solid state physics software package that can perform atomistic simulations of solid state, liquid, molecular, periodic, material, crystal, and biological systems.
最近更新: 3年多前Quantum ESPRESSO is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials.
最近更新: 3年多前WHole-genome Alignment Metrics (wham) is a structural variant (SV) caller that integrates several sources of mapping information to identify SVs. wham classifies SVs using a flexible and extendable machine-learning algorithm (random forest). wham is not only accurate at identifying SVs, but its association test can identify shared SVs enriched in a cohort of diseased individuals compared to a background of healthy individuals.
最近更新: 3年多前AutoDock is a suite of automated docking tools. It is designed to predict how small molecules, such as substrates or drug candidates, bind to a receptor of known 3D structure.
最近更新: 3年多前A comprehensive library of analysis tools for FMRI, MRI and DTI brain imaging data
最近更新: 3年多前The 3D-DNA pipeline was used to error-correct, anchor, order and orient the pieces in the draft assembly. The 3D-DNA visualization module, in conjunction with Juicer Tools, was used to create contact maps for the draft and the final genome assemblies.
最近更新: 3年多前The Subread software package is a tool kit for processing next-gen sequencing data. It includes Subread aligner, Subjunc exon-exon junction detector and featureCounts read summarization program.Subread aligner can be used to align both gDNA-seq and RNA-seq reads. Subjunc aligner was specified designed for the detection of exon-exon junction. For the mapping of RNA-seq reads, Subread performs local alignments and Subjunc performs global alignments.
最近更新: 3年多前
