RedNotebook is a modern desktop journal. It lets you format, tag and search your entries. You can also add pictures, links and customizable templates, spell check your notes, and export to plain text, HTML, Latex or PDF.

This library allows reading and writing RPM packages. It is used by the fpm tool. It is written in pure Ruby because librpm is not available on all systems and requires many dependencies.

As everyone knows, the most complex codes were composed of a mass of different kinds of parentheses (typically: lisp). This plugin will help you read these codes by showing different levels of parentheses in different colors.

Supplies AnnotationHub with `MeSHDb` NIH MeSH annotation databases for many species. All the SQLite files and metadata.csv are generated by our Snakemake workflow [mesh-workflow](https://github.com/rikenbit/mesh-workflow).

This package implements a filtering procedure for replicated transcriptome sequencing data based on a global Jaccard similarity index in order to identify genes with low, constant levels of expression across one or more experimental conditions.

Cap Analysis of Gene Expression (CAGE) data from "Identification of Gene Transcription Start Sites and Enhancers Responding to Pulmonary Carbon Nanotube Exposure in Vivo" by Bornholdt et al. supplied as CAGE Transcription Start Sites (CTSSs).

This package provides functions for displaying multiple images or scatterplots with a color scale, i.e., heat maps, possibly with projected coordinates. The package relies on the base graphics system, so graphics are rendered rapidly.

Collection of utilities that improve using Databricks from R. Primarily functions that wrap specific Databricks APIs (<https://docs.databricks.com/api>), RStudio connection pane support, quality of life functions to make Databricks simpler to use.

Direct sparse covariance matrix estimation via the covariance graphical lasso by Bien, Tibshirani (2011) <doi:10.1093/biomet/asr054> using the fast coordinate descent algorithm of Wang (2014) <doi:10.1007/s11222-013-9385-5>.

Includes functions for the analysis of circular data using distributions based on Nonnegative Trigonometric Sums (NNTS). The package includes functions for calculation of densities and distributions, for the estimation of parameters, for plotting and more.

This package provides a function (echo_find()) designed to find rhythms from data using extended harmonic oscillators. For more information, see H. De los Santos et al. (2020) <doi:10.1093/bioinformatics/btz617> .

This package creates a HTML widget which displays the results of searching for a pattern in files in a given git repository, including all its branches. The results can also be returned in a dataframe.

Calculate the final size of a susceptible-infectious-recovered epidemic in a population with demographic variation in contact patterns and susceptibility to disease, as discussed in Miller (2012) <doi:10.1007/s11538-012-9749-6>.

This package provides a simple method to select the best model or best subset of variables using different types of data (binary, Gaussian or Poisson) and applying it in different contexts (parametric or non-parametric).

This package provides a procedure that uses target-decoy competition (or knockoffs) to reject multiple hypotheses in the presence of group structure. The procedure controls the false discovery rate (FDR) at a user-specified threshold.

Create graticule lines and labels for maps. Control the creation of lines or tiles by setting their placement (at particular meridians and parallels) and extent (along parallels and meridians). Labels are created independently of lines.

This package provides a mechanism to plot a Google Map from R and overlay it with shapes and markers. Also provides access to Google Maps APIs, including places, directions, roads, distances, geocoding, elevation and timezone.

This package provides a set of R functions which implements Hotelling's T^2 test and some variants of it. Functions are also included for Aitchison's additive log ratio and centred log ratio transformations.

The Tweedie lasso model implements an iteratively reweighed least square (IRLS) strategy that incorporates a blockwise majorization decent (BMD) method, for efficiently computing solution paths of the (grouped) lasso and the (grouped) elastic net methods.

Generalized additive models with a numeric hyper column. Sign-adjustment based on the correlation of model prediction and a selected slice of the hyper column. Visualization of the integrand surface over the hyper column.

Allows direct access to the macroeconomic, financial and regional database maintained by Brazilian Institute for Applied Economic Research ('Ipea'). This R package uses the Ipeadata API. For more information, see <http://www.ipeadata.gov.br/>.

Utility functions that implement and automate common sets of validation tasks. These functions are particularly useful to validate inputs, intermediate objects and output values in user-defined functions, resulting in tidier and less verbose functions.

Set of the data science tools created by various members of the Long Term Ecological Research (LTER) community. These functions were initially written largely as standalone operations and have later been aggregated into this package.

Several service functions to be used to analyse datasets obtained from diallel experiments within the frame of linear models in R, as described in Onofri et al (2020) <DOI:10.1007/s00122-020-03716-8>.