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r-shinyfiles
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public |
Provides functionality for client-side navigation of the server side file system in shiny apps. In case the app is running locally this gives the user direct access to the file system without the need to "download" files to a temporary location. Both file and folder selection as well as file saving is available.
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2025-04-22 |
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r-robustrankaggreg
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public |
Methods for aggregating ranked lists, especially lists of genes. It implements the Robust Rank Aggregation (Kolde et. al in preparation) and some other simple algorithms for the task. RRA method uses a probabilistic model for aggregation that is robust to noise and also facilitates the calculation of significance probabilities for all the elements in the final ranking.
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2025-04-22 |
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r-reportr
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public |
Provides a system for reporting messages, which provides certain useful features over the standard R system, such as the incorporation of output consolidation, message filtering, assertions, expression substitution, automatic generation of stack traces for debugging, and conditional reporting based on the current "output level".
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2025-04-22 |
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r-pinfsc50
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public |
Genomic data for the plant pathogen "Phytophthora infestans." It includes a variant file ('VCF'), a sequence file ('FASTA') and an annotation file ('GFF'). This package is intended to be used as example data for packages that work with genomic data.
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2025-04-22 |
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r-nnls
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public |
An R interface to the Lawson-Hanson implementation of an algorithm for non-negative least squares (NNLS). Also allows the combination of non-negative and non-positive constraints.
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2025-04-22 |
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r-mqtl
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public |
mQTL provides a complete QTL analysis pipeline for metabolomic data. Distinctive features include normalisation using PQN approach, peak alignment using RSPA approach, dimensionality reduction using SRV approach and finally QTL mapping using R/qtl package.
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2025-04-22 |
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r-lsa
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public |
The basic idea of latent semantic analysis (LSA) is, that text do have a higher order (=latent semantic) structure which, however, is obscured by word usage (e.g. through the use of synonyms or polysemy). By using conceptual indices that are derived statistically via a truncated singular value decomposition (a two-mode factor analysis) over a given document-term matrix, this variability problem can be overcome.
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2025-04-22 |
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r-icsnp
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public |
Tools for multivariate nonparametrics, as location tests based on marginal ranks, spatial median and spatial signs computation, Hotelling's T-test, estimates of shape are implemented.
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2025-04-22 |
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r-metarnaseq
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public |
Implementation of two p-value combination techniques (inverse normal and Fisher methods). A vignette is provided to explain how to perform a meta-analysis from two independent RNA-seq experiments.
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2025-04-22 |
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tinyrpc
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public |
Simple, fast, extensible JSON encoder/decoder for Python
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2025-04-22 |
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r-bio3d
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public |
Utilities to process, organize and explore protein structure, sequence and dynamics data. Features include the ability to read and write structure, sequence and dynamic trajectory data, perform sequence and structure database searches, data summaries, atom selection, alignment, superposition, rigid core identification, clustering, torsion analysis, distance matrix analysis, structure and sequence conservation analysis, normal mode analysis, principal component analysis of heterogeneous structure data, and correlation network analysis from normal mode and molecular dynamics data. In addition, various utility functions are provided to enable the statistical and graphical power of the R environment to work with biological sequence and structural data. Please refer to the URLs below for more information.
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2025-04-22 |
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httpagentparser
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public |
Extracts OS Browser etc information from http user agent string
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2025-04-22 |
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r-xnomial
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public |
Tests whether a set of counts fit a given expected ratio. For example, a genetic cross might be expected to produce four types in the relative frequencies of 9:3:3:1. To see whether a set of observed counts fits this expectation, one can examine all possible outcomes with xmulti() or a random sample of them with xmonte() and find the probability of an observation deviating from the expectation by at least as much as the observed. As a measure of deviation from the expected, one can use the log-likelihood ratio, the multinomial probability, or the classic chi-square statistic. A histogram of the test statistic can also be plotted and compared with the asymptotic curve.
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2025-04-22 |
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r-rmallow
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public |
An EM algorithm to fit Mallows' Models to full or partial rankings, with or without ties.
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2025-04-22 |
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r-ppcor
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public |
Calculates partial and semi-partial (part) correlations along with p-value.
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2025-04-22 |
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r-modeest
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public |
Provides estimators of the mode of univariate data or univariate distributions.
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2025-04-22 |
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r-mlbench
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public |
A collection of artificial and real-world machine learning benchmark problems, including, e.g., several data sets from the UCI repository.
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2025-04-22 |
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r-microseq
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public |
Basic functions for microbial sequence data analysis. The idea is to use generic R data structures as much as possible, making R data wrangling possible also for sequence data.
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2025-04-22 |
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r-emt
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public |
The package provides functions to carry out a Goodness-of-fit test for discrete multivariate data. It is tested if a given observation is likely to have occurred under the assumption of an ab-initio model. A p-value can be calculated using different distance measures between observed and expected frequencies. A Monte Carlo method is provided to make the package capable of solving high-dimensional problems.
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2025-04-22 |
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r-pamr
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public |
Some functions for sample classification in microarrays.
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2025-04-22 |
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r-jade
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public |
Cardoso's JADE algorithm as well as his functions for joint diagonalization are ported to R. Also several other blind source separation (BSS) methods, like AMUSE and SOBI, and some criteria for performance evaluation of BSS algorithms, are given. The package is described in Miettinen, Nordhausen and Taskinen (2017) <doi:10.18637/jss.v076.i02>.
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2025-04-22 |
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r-ccapp
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public |
Canonical correlation analysis and maximum correlation via projection pursuit, as well as fast implementations of correlation estimators, with a focus on robust and nonparametric methods.
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2025-04-22 |
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r-dicekriging
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public |
Estimation, validation and prediction of kriging models.
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2025-04-22 |
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pysot
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public |
Surrogate Optimization Toolbox
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2025-04-22 |
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pyblake2
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public |
pyblake2 is an extension module for Python implementing BLAKE2 hash function.
BLAKE2 is a cryptographic hash function, which offers highest security while being as fast as MD5 or SHA-1,
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2025-04-22 |
