Range Modeling Metadata Standards (RMMS) address three challenges: they (i) are designed for convenience to encourage use, (ii) accommodate a wide variety of applications, and (iii) are extensible to allow the community of range modelers to steer it as needed. RMMS are based on a data dictionary that specifies a hierarchical structure to catalog different aspects of the range modeling process. The dictionary balances a constrained, minimalist vocabulary to improve standardization with flexibility for users to provide their own values. Merow et al. (2019) <DOI:10.1111/geb.12993> describe the standards in more detail. Note that users who prefer to use the R package ecospat can obtain it from <https://github.com/ecospat/ecospat>.
The Regexp::Grammars module adds a small number of new regex constructs that can be used within Perl 5.10 patterns to implement complete recursive-descent parsing. It allows you to go beyond matching complex, nested and recursive structures, and allows you to parse and extract hierarchical data from it.
This is a library to allow the easy creation of Relay-compliant servers using the GraphQL Python reference implementation of a GraphQL server. It should be noted that the code is a exact port of the original graphql-relay js implementation from Facebook.
Utilize the shiny interface to parameterize a Visual Predictive Check (VPC), including selecting from different binning or binless methods and performing stratification, censoring, and prediction correction. Generate the underlying tidyvpc and ggplot2 code directly from the user interface and download R or Rmd scripts to reproduce the VPCs in R.
Given the omnipresence of the assumption of elliptical symmetry, it is essential to be able to test whether that assumption actually holds true or not for the data at hand. This package provides several statistical tests for elliptical symmetry that are described in Babic et al. (2021) <arXiv:2011.12560v2>.
mime-types-data provides a registry for information about Multipurpose Internet Mail Extensions (MIME) media type definitions. It can be used with the Ruby mime-types library or other software to determine defined filename extensions for MIME types, or to use filename extensions to look up the likely MIME type definitions.
This package provides functions for quantifying visible (VIS) and ultraviolet (UV) radiation in relation to the photoreceptors Phytochromes, Cryptochromes, and UVR8 which are present in plants. It also includes data sets on the optical properties of plants. Part of the r4photobiology suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Scikit-rebate is a scikit-learn-compatible Python implementation of ReBATE, a suite of Relief-based feature selection algorithms for Machine Learning. These algorithms excel at identifying features that are predictive of the outcome in supervised learning problems, and are especially good at identifying feature interactions that are normally overlooked by standard feature selection algorithms.
This package provides essential Cleaning Validation functions for complying with pharmaceutical cleaning process regulatory standards. The package includes non-parametric methods to analyze drug active-ingredient residue (DAR), cleaning agent residue (CAR), and microbial colonies (Mic) for non-Poisson distributions. Additionally, Poisson methods are provided for Mic analysis when Mic data follow a Poisson distribution.
This package creates an XDG_RUNTIME_DIR directory on login per the freedesktop.org base directory spec. Flaunts the spec and never removes it, even after last logout. This keeps things simple and predictable.
The user is responsible for ensuring that the /run/user directory exists and is only writable by root.
Improve optical character recognition by binarizing images. The package focuses primarily on local adaptive thresholding algorithms. In English, this means that it has the ability to turn a color or gray scale image into a black and white image. This is particularly useful as a preprocessing step for optical character recognition or handwritten text recognition.
Creation of tables of summary statistics or counts for clinical data (for TLFs'). These tables can be exported as in-text table (with the flextable package) for a Clinical Study Report (Word format) or a topline presentation (PowerPoint format), or as interactive table (with the DT package) to an html document for clinical data review.
This package provides a wrapper of different methods from Linear Algebra for the equations introduced in The Atlas of Economic Complexity and related literature. This package provides standard matrix and graph output that can be used seamlessly with other packages. See <doi:10.21105/joss.01866> for a summary of these methods and its evolution in literature.
This package provides functions to predict one multi-way array (i.e., a tensor) from another multi-way array, using a low-rank CANDECOMP/PARAFAC (CP) factorization and a ridge (L_2) penalty [Lock, EF (2018) <doi:10.1080/10618600.2017.1401544>]. Also includes functions to sample from the Bayesian posterior of a tensor-on-tensor model.
returntogrid offers a few commands to get something like an simple, semi-automatic grid typesetting. It does more or less what the existing gridset package does. The main differences to gridset are that returntogrid works also with LuaLaTeX and that it has also a command to do some horizontal movements to get to Tab positions.
Appliation for discovering direct or indirect targets of transcription factors using ChIP-chip or ChIP-seq, and microarray or RNA-seq gene expression data. Inputting a list of genes of potential targets of one TF from ChIP-chip or ChIP-seq, and the gene expression results, GeneNetworkBuilder generates a regulatory network of the TF.
The MicrobiomeExplorer R package is designed to facilitate the analysis and visualization of marker-gene survey feature data. It allows a user to perform and visualize typical microbiome analytical workflows either through the command line or an interactive Shiny application included with the package. In addition to applying common analytical workflows the application enables automated analysis report generation.
Allows the computation of clustering coefficients for directed and weighted networks by using different approaches. It allows to compute clustering coefficients that are not present in igraph package. A description of clustering coefficients can be found in "Directed clustering in weighted networks: a new perspective", Clemente, G.P., Grassi, R. (2017), <doi:10.1016/j.chaos.2017.12.007>.
The correction is achieved under the assumption that non-migrating cells of the essay approximately form a quadratic flow profile due to frictional effects, compare law of Hagen-Poiseuille for flow in a tube. The script fits a conical plane to give xyz-coordinates of the cells. It outputs the number of migrated cells and the new corrected coordinates.
Textual statistics functions formerly in the quanteda package. Textual statistics for characterizing and comparing textual data. Includes functions for measuring term and document frequency, the co-occurrence of words, similarity and distance between features and documents, feature entropy, keyword occurrence, readability, and lexical diversity. These functions extend the quanteda package and are specially designed for sparse textual data.
U-Boot is a bootloader used mostly for ARM boards. It also initializes the boards (RAM etc).
It allows network booting and uses the device-tree from the firmware, allowing the usage of overlays. It can act as an EFI firmware for the grub-efi-netboot-removable-bootloader. This is a 32-bit build of U-Boot.
U-Boot is a bootloader used mostly for ARM boards. It also initializes the boards (RAM etc).
It allows network booting and uses the device-tree from the firmware, allowing the usage of overlays. It can act as an EFI firmware for the grub-efi-netboot-removable-bootloader. This is a 32-bit build of U-Boot.
visual-replace provides an alternate interface for search and replacement commands that supports previews. The interface also allows one to edit both the query-text and its replacement in the same minibuffer prompt. The interface covers the following commands:
replace-stringreplace-regexpquery-replacequery-replace-regexp
MoleculeExperiment contains functions to create and work with objects from the new MoleculeExperiment class. We introduce this class for analysing molecule-based spatial transcriptomics data (e.g., Xenium by 10X, Cosmx SMI by Nanostring, and Merscope by Vizgen). This allows researchers to analyse spatial transcriptomics data at the molecule level, and to have standardised data formats accross vendors.