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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-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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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 |
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r-clues
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public |
We developed the clues R package to provide functions for automatically estimating the number of clusters and getting the final cluster partition without any input parameter except the stopping rule for convergence. The package also provides functions to evaluate and compare the performances of partitions of a data set both numerically and graphically.
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2025-04-22 |
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r-rsvgtipsdevice
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public |
A graphics device for R that uses the w3.org xml standard for Scalable Vector Graphics. This version supports tooltips with 1 to 3 lines, hyperlinks, and line styles.
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2025-04-22 |
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smokesignal
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public |
A simple python library for sending and receiving signals
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2025-04-22 |
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r-matching
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public |
Provides functions for multivariate and propensity score matching and for finding optimal balance based on a genetic search algorithm. A variety of univariate and multivariate metrics to determine if balance has been obtained are also provided.
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2025-04-22 |
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r-smvar
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public |
Implements the structural model for variances in order to detect differentially expressed genes from gene expression data
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2025-04-22 |
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r-ggm
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public |
Functions and datasets for maximum likelihood fitting of some classes of graphical Markov models.
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2025-04-22 |
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adept
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public |
Fast automatic differentiation library in C++
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2025-04-22 |
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poap
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public |
Python Optimization Asynchronous Plumbing.
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2025-04-22 |
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optlang
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public |
optlang - sympy based mathematical programming language
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2025-04-22 |
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r-polynomf
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public |
Implements univariate polynomial operations in R, including polynomial arithmetic, finding zeros, plotting, and some operations on lists of polynomials.
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2025-04-22 |
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reaper
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public |
REAPER: Robust Epoch And Pitch EstimatoR
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2025-04-22 |
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r-svd
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public |
R bindings to SVD and eigensolvers (PROPACK, nuTRLan).
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2025-04-22 |
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r-mustat
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public |
Performs Wilcox rank sum test, Kruskal rank sum test, Friedman rank sum test and McNemar test.
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2025-04-22 |
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r-genkern
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public |
Computes generalised KDEs
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2025-04-22 |
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r-genabel
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public |
a package for genome-wide association analysis between quantitative or binary traits and single-nucleotide polymorphisms (SNPs).
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2025-04-22 |
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r-taxize
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public |
Interacts with a suite of web 'APIs' for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more.
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2025-04-22 |
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r-bold
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public |
A programmatic interface to the Web Service methods provided by Bold Systems (<http://www.boldsystems.org/>) for genetic 'barcode' data. Functions include methods for searching by sequences by taxonomic names, ids, collectors, and institutions; as well as a function for searching for specimens, and downloading trace files.
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2025-04-22 |
