An R package for divergence analysis of omics data

نویسندگان

چکیده

Given the ever-increasing amount of high-dimensional and complex omics data becoming available, it is increasingly important to discover simple but effective methods analysis. Divergence analysis transforms each entry a profile into digitized (binary or ternary) code based on deviation from given baseline population. This novel framework that significantly different existing methods: allows digitization continuous at univariate multivariate level, facilitates sample level analysis, applicable many platforms. The divergence package, available R platform through Bioconductor repository collection, provides easy-to-use functions for carrying out this transformation. Here we demonstrate how use package with Cancer Genome Atlas.

برای دانلود رایگان متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

supraHex: An R/Bioconductor package for tabular omics data analysis using a supra-hexagonal map☆

Biologists are increasingly confronted with the challenge of quickly understanding genome-wide biological data, which usually involve a large number of genomic coordinates (e.g. genes) but a much smaller number of samples. To meet the need for data of this shape, we present an open-source package called 'supraHex' for training, analysing and visualising omics data. This package devises a supra-...

متن کامل

mixOmics: An R package for ‘omics feature selection and multiple data integration

The advent of high throughput technologies has led to a wealth of publicly available 'omics data coming from different sources, such as transcriptomics, proteomics, metabolomics. Combining such large-scale biological data sets can lead to the discovery of important biological insights, provided that relevant information can be extracted in a holistic manner. Current statistical approaches have ...

متن کامل

GeoXp: An R Package for Exploratory Spatial Data Analysis

We present GeoXp, an R package implementing interactive graphics for exploratory spatial data analysis. We use data bases coming from the spdep package to illustrate the use of these exploratory techniques based on the coupling between a statistical graph and a map. Besides elementary plots like boxplots, histograms or simple scatterplots, GeoXp also couples maps with Moran scatterplots, variog...

متن کامل

openair - An R package for air quality data analysis

openair is an R package primarily developed for the analysis of air pollution measurement data but which is also of more general use in the atmospheric sciences. The package consists of many tools for importing and manipulating data, and undertaking a wide range of analyses to enhance understanding of air pollution data. In this paper we consider the development of the package with the purpose ...

متن کامل

Wrapped: An R package for circular data

The Wrapped package computes the probability density function, cumulative distribution function, quantile function and also generates random samples for many univariate wrapped distributions. It also computes maximum likelihood estimates, standard errors, confidence intervals and measures of goodness of fit for nearly fifty univariate wrapped distributions. Numerical illustrations of the packag...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

ژورنال

عنوان ژورنال: PLOS ONE

سال: 2021

ISSN: ['1932-6203']

DOI: https://doi.org/10.1371/journal.pone.0249002