Softaware from QDMR: a quantitative method for identification of differentially methylated regions by entropy.Zhang Y, Liu H, Lv J, Xiao X, Zhu J, Liu X, Su J, Li X, Wu Q, Wang F & Cui Y
Allows users to quantify methylation difference and identify differentially methylated regions (DMRs) across multiple samples. QDMR is a quantitative approach genome-wide quantitative comparisons of DNA methylation among multiple samples based on Shannon entropy. The software can be used as an effective tool for the quantification of methylation difference and identification of DMRs across multiple samples.
Multi Infrastructure Control and Optimization Toolkit, Resilient Design Module (MICOT-RDT), version 2.XRussell Bent, Harsha Nagarajan, Emre Yamangil & Carleton Coffrin
MICOT is a tool for optimizing and controlling infrastructure systems. In includes modules for optimizing the operations of an infrastructure structure (for example optimal dispatch), designing infrastructure systems, restoring infrastructures systems, resiliency, preparing for natural disasters, interdicting networks, state estimation, sensor placement, and simulation of infrastructure systems. It implements algorithms developed at LANL that have been published in the academic community. This is a release of the of resilient design module of the MICOT.
This algorithm mainly deal with the JND estimation in DCT domain for image
Release 2.6.0-beta.3 amended the CMake build of the exported lib to work out-of-source.
This is a finite-difference, two-layer, quasi-geosotrophic model. The governing equations are the conservation of potential vorticity in each layer with added viscous terms and forcing (Pedlosky, 1987). This model simulates the dynamics of mesoscale currents. The nonlinear term is discretized with Arakawa energy, enstrophy and symmetry conserving scheme. Doubly-periodic boundary conditions are applied. To compile, please, type "make all".
To be added after scanning
Set definitions can now define constraints on the combination of classes/subsets used. #50 Added a t-ref element as a text markup counterpart to ref Added flexibility for structure elements (more nesting options)
Appveyor was having trouble with earlier prereleases because of a unicode handling problem in the poetry library. Pinning pendulum (which itself uses poetry) to an earlier version that installs cleanly, mostly to make Appveyor's build system happy.
Hector 2.3.0 Constrain atmospheric CO2 concentration to be equal to the preindustrial concentration during the model spinup. The result of this is that the concentration at the beginning of the simulation will be equal to the value specified in the PREINDUSTRIAL_CO2 parameter, which was not the case previously.
Softaware from Systematic identification and annotation of human methylation marks based on bisulfite sequencing methylomes reveals distinct roles of cell type-specific hypomethylation in the regulation of cell identity genes.Liu H, Liu X, Zhang S, Lv J, Li S, Shang S, Jia S, Wei Y, Wang F, Su J, Wu Q & Zhang Y
Detects the cell type-specific methylation marks by integrating multiple methylomes from human cell lines and tissues. SMART is an entropy-based framework focused on integrating of a large number of DNA methylomes for the de novo identification of cell type-specific MethyMarks. To facilitate the specific methylation analysis, this method dynamically integrates multiple methylomes and identifies the cell type-specific methylation marks.
This Release includes new features: Muscle controller (Equilibrium Point control, reflex control) Part_Averaged routing Ringbuffer using history variables
At exascale, the challenge becomes to develop applications that run at scale and use exascale platforms reliably, efficiently, and flexibly. Workflows become much more complex because they must seamlessly integrate simulation and data analytics. They must include down-sampling, post-processing, feature extraction, and visualization. Power and data transfer limitations require these analysis tasks to be run in-situ or in-transit. We expect successful workflows will comprise multiple linked simulations along with tens of analysis routines. Users will...
We develop an adaptive transform-domain technique based on rational function systems. Although these systems have been widely and successfully used in system and control theories, they have been applied in signal processing only recently. The construction of the proposed method is discussed in the framework of a general mathematical model called variable projection. First we generalize this method by adding dimension type free parameters. Then we deal with the optimization problem of the free parameters....
A Markov chain Monte Carlo (MCMC) algorithm is developed and implemented to inference the Graph Topic Model (GTM). GTM is a probabilistic graphical model for the data represented by graph structure, e.g., chemical formulas or documents. The enclosed codes are written by Matlab. 'text_gs.m' is the test program in which a synthetic dataset is simulated to demonstrate the procedure of the MCMC algorithm. When you want to use this code, you can format your data...
The C++ Standard Library for Parallelism and Concurrency
Password management solutions exist, but few are designed for enterprise systems administrators sharing oncall rotations. Due to the Multi-Factor Level of Assurance 4 effort, DOE is now distributing PIV cards with cryptographically signed certificate and private key pairs to administrators and other security-significant users. We utilize this public key infrastructure (PKI) to encrypt passwords for other recipients in a secure way. This is cross platform (works on OSX and Linux systems), and has already been...
framed: a metabolic modeling package for python
Allows user to download MEDLINE, a database for scientific text mining, information extraction, natural language processing, algorithm training and reference searches. MEDOC is a Python program designed to download data on an FTP and to load all extracted information into a local mySQL database. The indexed relational database permits user to build complex and rapid queries. All fields can also be searched for desired information.
The Datatype Compare (DTCMP) library provides routines that sort, search, merge, partition, rank, and select items using operations that compare MPI datatypes. Such routines are needed im MPI applications dealing with large distributed latasets, where the amount of data is too large to gather to a single process.
National Cancer Informatics Program Hub (NCIPHUB)2,727
figshare Academic Research System1,167
The Australian National University66
ETHZ Data Archive - Research Data36
USGS DOI Tool Production Environment24
Remote Sensing Code Library19
University of Auckland Data Publishing and Discovery Service13
University of Sheffield11