Search Results for "r package xmsannotator" - Page 4
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Showing 173 open source projects for "r package xmsannotator"
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HBV interventions model
ODE HBV model and MCMC for fitting HBsAg, HBcAg and HBeAg data.
This code implements the MCMC and ordinary differential equation (ODE) model described in [1]. The core MCMC and ODE code is implemented in C/C++, and is wrapped with an R front end. This is not an R-package (although there are plans to extend the code and eventually make it into an R-package). Please read the PDF file supplied for further instructions on how to use this code. [1] HBV vaccination and PMTCT as elimination tools in the presence of HIV: insights from a clinical cohort... -
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bookdownplus
Use R package bookdown for writing varied types of books and documents
The package bookdownplus (Zhao 2017a) is an extension of R bookdown (Xie 2016). It is a collection of multiple templates on the basis of LaTeX, which is tailored so that I can work happily under the umbrella of bookdown. bookdownplus helps you write academic journal articles, guitar books, chemical equations, mails, calendars, and diaries. bookdown features the collaboration of many fantastic tools. However, an R beginner might be confused or depressed in struggling in the flood of LaTeX, YAML... -
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reacto
A sweet IDE for React.js
Interact with your code: use bricks to play with props, imports or quickly change a component type. Package Manager out of the box: add, upgrade, delete and search dependencies in a flash. Smart and fast autocomplete: automatically find relative path to any file, quick snippets and more to come. Preview components, quickly: press Cmd+R to toggle the component previewer. That's it. Reacto is available for Mac, Windows, and Linux. It can be downloaded from the releases page. There is absolutely... -
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An R package for metrology. metRology provides classes and calculation and plotting functions for metrology applications, including measurement uncertainty estimation and (eventually) inter-laboratory metrology comparison studies.
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Grinn
graph database and R package for omic data integration
http://kwanjeeraw.github.io/grinn/ -
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JDistlib
Java library of statistical distribution
A Java package that provides routines for various statistical distributions. Based on R version 2.14.1 (continuously updated; current as of R v3.3.0). The major difference is that JDistlib is thread safe. The library contains the density (pdf), cumulative (cdf), quantile, and random number generator (RNG) routines of the following distributions: Ansari, Beta, Binomial, Cauchy, Chi square, Exponential, Fisher's F, Gamma, Geometric, Hypergeometric, Kendall, Logistic, Log normal, Negative binomial... -
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fscaret_shiny
UI for fscaret
User Interface (ui) application which implements the automated feature selection provided by the 'fscaret' package of R-environment. -
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Peptrix
Label free peptide profiling
... database, which contains all metadata, such as experiment numbers and sample codes, 3) a FTP (File Transport Protocol) server to store all raw mass spectrometry files and processed data, 4) the software package R, which is used for modular statistical calculations, such as the Wilcoxon-Mann-Whitney rank sum test. -
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xMWAS
An R package for integrative analysis of omics data
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MetabNet
An R package for network analysis of high-resolution metabolomics data
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autoFRK
Automatic Fixed Rank Kriging
An R package 'autoFRK' performs fixed rank kriging for (irregularly located) spatial data using a class of basis functions with multi-resolution features and ordered in terms of their resolutions. The model parameters are estimated by maximum likelihood (ML) and the number of basis functions is determined by Akaike's information criterion (AIC). For spatial data with either one realization or independent replicates, the ML estimates and AIC are efficiently computed using their closed-form... -
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This R package combines biological information (expression data) with theoretical information (miRNA target prediction databases) in order to obtain a curated list of potential miRNA-mRNA interaction pairs.
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R_poRe
An R package to enable visualisation of nanopore sequencing data
The Oxford Nanopore MinION is a revolutionary sequencer with a unique model of data delivery, requiring novel tools for the novice user. This package enables organisation and visualisation of MinION data on the MinION laptop -
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PhyIntOm
PhyloInteractOmics
The R package phyintom (pronounced as phantom) provides tools to perform phylotranscriptomic analyses of highthroughput gene expression data. -
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DiffCorr
an R package to analyze differential correlations biological networks
DiffCorr can explore differential correlations between different conditions in a modern post-genomics data including transcriptomics and metabolomics. DiffCorr package might prove useful for identifying various differential correlations and for detecting biomarker candidates. -
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SWire4R
An R package enabling R to interact with Stata for data exchange
Swire4R is an R package for exchanging data between R and Stata. SWire4R uses SWire for connecting R to Stata. SWire is a plugin for Stata >=13 which acts like a server: client applications can query SWire for interacting with Stata. SWire4R acts like a client application for Swire, providing the user with various basic functions for retrieving data from Stata and exporting data to Stata. SWire4R must be compiled by R. For more information about SWire, visit https://sourceforge.net/projects... -
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runjags
The 'runjags' R package and standalone JAGS extension module
This package provides high-level interface utilities for MCMC models via Just Another Gibbs Sampler (JAGS), facilitating the use of parallel (or distributed) processors for multiple chains, automated control of convergence and sample length diagnostics, and evaluation of the performance of a model using drop-k validation or against simulated data. Template model specifications can be generated using a standard lme4-style formula interface to assist users less familiar with the BUGS syntax... -
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Quake Shareware HD (High Definition)
Quake in High Definition
Quake in High Definition for DVD-ROM discs. Old YouTube video at: http://www.youtube.com/watch?v=qL2pJwINjSM -
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iHeatmap
Build a heatmap through interactive way
Help researcher to build a heatmap through interactive way. Now use python to provide a GUI for a public R package heatmap3. Users need to install heatmap3 package from CRAN. -
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Strandseq-InvertR
predicts inversions in Strand-seq data
Invert.R is a custom, R-based bioinformatic package that localizes and genotypes putative inversions in single cells. The program systematically assesses strand orientation of Strand-seq libraries using a read-based sliding window strategy to calculate Watson-Crick ratios. It assigns locale strand states based on these ratios and predicts inversions based on regional changes in strand state. The source code of this package is freely available. -
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CanReg5 (moved to Github)
Canreg5 is a software package for population based cancer registries
Cancer registries need a tool to input, store, check and analyse their data. If these data are also coded and verified in a standard way, it facilitates the production of comparable analyses across registry populations. The main goal of the CanReg5 project is to provide a flexible and easy to use tool to accomplish these objectives. CanReg5 is a multi user, multi platform, open source tool to input, store, check and analyse cancer registry data. It has modules to do: data entry,... -
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hSDM
R package for hierarchical species distribution models
hSDM is an R package for hierarchical species distribution models. Such models allows interpreting the observations (occurrence and abundance of a species) as a result of several hierarchical processes including ecological processes (habitat suitability, spatial dependence and anthropogenic disturbance) and observation processes (species detectability). Hierarchical species distribution models are essential for accurately characterizing the environmental response of species, predicting... -
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This is an R package for the Mass spectrometry Research. The MrR can be used to analyze the mass spectrometry data for baseline correction, denoising, peak detection, peak alignment, peak normalization, and biomarker discovery.
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EDDA
Experiment Design for Differential Abundance Analysis
.... “The Importance of Study Design for Detecting Differentially Abundant Features in High-Throughput Experiments.” Genome Biology 2014;15(12):527 (http://www.ncbi.nlm.nih.gov/pubmed/25517037/). An accompanying web server (http://edda.gis.a-star.edu.sg/) is available for easy access to some functionality of EDDA. Additionally a Bioconductor package (http://www.bioconductor.org/packages/release/bioc/html/EDDA.html) is available for easy installation of EDDA R package.