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roxygen2 - In-Line Documentation for R

Generate your Rd documentation, 'NAMESPACE' file, and collation field using specially formatted comments. Writing documentation in-line with code makes it easier to keep your documentation up-to-date as your requirements change. 'roxygen2' is inspired by the 'Doxygen' system for C++.

Last updated

devtoolsdocumentationcpp

19.65 score 663 stars 234 dependents 2.7k scripts 272k downloads

chk - Check User-Supplied Function Arguments

For developers to check user-supplied function arguments. It is designed to be simple, fast and customizable. Error messages follow the tidyverse style guide.

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chk

11.83 score 50 stars 78 dependents 34 scripts 11k downloads

fledge - Smoother Change Tracking and Versioning for R Packages

Streamlines the process of updating changelogs (NEWS.md) and versioning R packages developed in git repositories.

Last updated

changeloggitpackage-creation

9.05 score 192 stars 14 scripts 399 downloads

term - Create, Manipulate and Query Parameter Terms

Creates, manipulates, queries and repairs vectors of parameter terms. Parameter terms are the labels used to reference values in vectors, matrices and arrays. They represent the names in coefficient tables and the column names in 'mcmc' and 'mcmc.list' objects.

Last updated

coefficientsmcmcterm

8.29 score 11 stars 15 dependents 79 scripts 528 downloads

mcmcr - Manipulate MCMC Samples

Functions and classes to store, manipulate and summarise Monte Carlo Markov Chain (MCMC) samples. For more information see Brooks et al. (2011) <isbn:978-1-4200-7941-8>.

Last updated

codamcmc

8.29 score 20 stars 11 dependents 164 scripts 516 downloads

nlist - Lists of Numeric Atomic Objects

Create and manipulate numeric list ('nlist') objects. An 'nlist' is an S3 list of uniquely named numeric objects. An numeric object is an integer or double vector, matrix or array. An 'nlists' object is a S3 class list of 'nlist' objects with the same names, dimensionalities and typeofs. Numeric list objects are of interest because they are the raw data inputs for analytic engines such as 'JAGS', 'STAN' and 'TMB'. Numeric lists objects, which are useful for storing multiple realizations of of simulated data sets, can be converted to coda::mcmc and coda::mcmc.list objects.

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data-framenatomicnlistnlists

7.77 score 6 stars 13 dependents 21 scripts 524 downloads

readwritesqlite - Enhanced Reading and Writing for 'SQLite' Databases

Reads and writes data frames to 'SQLite' databases while preserving time zones (for POSIXct columns), projections (for 'sfc' columns), units (for 'units' columns), levels (for factors and ordered factors) and classes for logical, Date and 'hms' columns. It also logs changes to tables and provides more informative error messages.

Last updated

dbilogmetadataposixctreadsfcsqliteunitswrite

7.25 score 39 stars 2 dependents 14 scripts 56 downloads

universals - S3 Generics for Bayesian Analyses

Provides S3 generic methods and some default implementations for Bayesian analyses that generate Markov Chain Monte Carlo (MCMC) samples. The purpose of 'universals' is to reduce package dependencies and conflicts. The 'nlist' package implements many of the methods for its 'nlist' class.

Last updated

genericsmodel-fittings3

6.43 score 4 stars 25 dependents 1 scripts 592 downloads

newdata - Generate New Data Frames for Prediction

Generates new data frames for predictive purposes. By default, all specified variables vary across their range while all other variables are held constant at the default reference value. Types, classes, factor levels and time zones are always preserved. The user can specify the length of each sequence, require that only observed values and combinations are used and add new variables.

Last updated

5.79 score 5 stars 8 dependents 19 scripts

timer - R6 Timer

A simple timer as an R6 class. The timer has four functions: start(), stop(), reset() and elapsed(). The elapsed() function returns the elapsed wall clock time (as opposed to CPU time) as an object of class lubridate::Duration.

Last updated

5.48 score 1 stars 4 dependents 113 scripts

mcmcderive - Derive MCMC Parameters

Generates derived parameter(s) from Monte Carlo Markov Chain (MCMC) samples using R code. This allows Bayesian models to be fitted without the inclusion of derived parameters which add unnecessary clutter and slow model fitting. For more information on MCMC samples see Brooks et al. (2011) <isbn:978-1-4200-7941-8>.

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derived-parametersmcmcmcmcr

5.39 score 9 dependents 7 scripts 356 downloads

bboutools - Boreal Caribou Survival, Recruitment and Population Growth

Estimates annual survival, recruitment and population growth for boreal caribou populations using Bayesian and Maximum Likelihood models with fixed and random effects.

Last updated

5.32 score 1 stars 2 dependents 29 scripts

hmstimer - 'hms' Based Timer

Tracks elapsed clock time using a `hms::hms()` scalar. It was was originally developed to time Bayesian model runs. It should not be used to estimate how long extremely fast code takes to execute as the package code adds a small time cost.

Last updated

hmstimer

5.28 score 2 stars 1 dependents 4 scripts 363 downloads

err - Customizable Object Sensitive Messages

Messages should provide users with readable information about R objects without flooding their console. 'cc()' concatenates vector and data frame values into a grammatically correct string using commas, an ellipsis and conjunction. 'cn()' allows the user to define a string which varies based on a count. 'co()' combines the two to produce a customizable object aware string. The package further facilitates this process by providing five 'sprintf'-like types such as '%n' for the length of an object and '%o' for its name as well as wrappers for pasting objects and issuing errors, warnings and messages.

Last updated

errorsmessageswarnings

5.20 score 9 stars 118 scripts 64 downloads

embr - Model Builder Utility Functions and Virtual Classes

Utility functions and virtual classes shared by model builder packages such as tmbr, jmbr and smbr.

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analysesmbr

5.19 score 3 stars 4 dependents 12 scripts

dbflobr - Read and Write Files to SQLite Databases

Reads and writes files to SQLite databases <https://www.sqlite.org/index.html> as flobs (a flob is a blob that preserves the file extension).

Last updated

blobdatabasesflobsqlite

4.94 score 5 stars 5 scripts 87 downloads

batchr - Batch Process Files

Processes multiple files with a user-supplied function. The key design principle is that only files which were last modified before the directory was configured are processed. A hidden file stores the configuration time and function etc while successfully processed files are automatically touched to update their modification date. As a result batch processing can be stopped and restarted and any files created (or modified or deleted) during processing are ignored.

Last updated

batch-processing

4.92 score 7 stars 9 scripts 18 downloads

jmbr - Analyses Using JAGS

Facilitates analyses using 'Just Another Gibbs Sampler'.

Last updated

jagsmbrcpp

4.88 score 3 stars 7 scripts

flobr - Convert Files to and from Binary Objects (BLOBs)

Converts files to and from flobs. A flob is a file that was read into binary in raw-mode, saved as the single element of a named list (where the name is the name of the original file) and then serialized before being coerced into a blob. Flobs are useful for writing and reading files to and from databases.

Last updated

blobflob

4.69 score 10 stars 1 dependents 12 scripts 88 downloads

fwatlasbc - Freshwater Atlas British Columbia

Queries the Freshwater Atlas (FWA) of British Columbia through the 'fwapg' API <https://www.hillcrestgeo.ca/fwapg/index.html> via the 'fwapgr' package and returns spatial data as simple features ('sf'). Also provides tools to convert streams to and from river meters, snap points to streams, and split, prune and join stream networks.

Last updated

bcfwapgfwapgr

4.48 score 11 stars 6 scripts

subfoldr2 - Save and Load R Objects

Facilitates saving and loading R objects, data frames, tables, plots, text blocks and numbers to subfolders.

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4.45 score 2 stars 1 dependents 5 scripts

kootlake - Kootenay Lake Data

Annual Rainbow Trout, Bull Trout and Kokanee datasets for Kootenay Lake.

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bcgovkootenay-lake

3.95 score 4 scripts

poissontemplate - 'pkgdown' Templates for Poisson Consulting Packages

This is a private template for use by Poisson consulting packages. Please don't use for your own code.

Last updated

4.38 score

evrfish - R Tools for EVR Fish Projects

Provides functions linearly interpolate missing values and calculate growing season degree days and growing degree days from daily water temperature data. It also exports fish codes for British Columbia and Alberta from the `fishbc` package.

Last updated

4.30 score 1 stars 4 scripts

gsdd - Calculate Growing Season Degree Days from Water Temperature Data

Calculates Growing Season Degree Days (GSDD), Growing Degree Days (GDD) and the Growing Seasons (GSS) from water temperature data. GSSD is a water temperature metric that is a useful predictor of age-0 trout size at the beginning of winter. It is the accumulated thermal units (in C) during the growing season based on the mean daily water temperature values. GDD is the GSSD to a particular date.

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4.21 score 6 stars 1 dependents 5 scripts

smbr - Facilitates Bayesian Analysis using STAN

Facilitates analyses using STAN.

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mbrstan

4.08 score 2 stars 1 dependents 7 scripts

rescale - Rescales Data Based on Other Data

Rescales columns in a data frame based on the columns in a second data frame. For example a column can be rescaled by subtracting the mean and dividing by the standard deviation. The user can pass the names of functions which calculate the value to subtract and/or the value to divide by. The package was developed for making predictions based on models with rescaled variables. For the predictions to be valid the new data frame must have its predictor variables rescaled based on the original data.

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3.98 score 8 dependents 8 scripts

mcmcdata - Manipulate MCMC Samples and Data Frames

Manipulates Monte Carlo Markov Chain samples and associated data frames.

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3.95 score 1 stars 5 dependents 4 scripts

ssdvignettes - Species Sensitivity Distribution Vignettes

What the package does (one paragraph).

Last updated

3.95 score 1 scripts

shinyssdtools - ssdtools Shiny App

Shiny application for fitting species sensitivity distributions using ssdtools.

Last updated

shiny

3.64 score 7 scripts