|
r-demerelate
|
public |
Functions to calculate pairwise relatedness on diploid genetic datasets. Different estimators for relatedness can be combined with information on geographical distances. Information on heterozygosity, allele- and genotype diversity as well as genetic F-statistics are provided for each population.
|
2025-09-21 |
|
opentelemetry-instrumentation-bedrock
|
public |
OpenTelemetry Bedrock instrumentation
|
2025-09-21 |
|
r-segregation
|
public |
Computes entropy-based segregation indices, as developed by Theil (1971) <isbn:978-0471858454>, with a focus on the Mutual Information Index (M) and Theil's Information Index (H). The M, further described by Mora and Ruiz-Castillo (2011) <doi:10.1111/j.1467-9531.2011.01237.x> and Frankel and Volij (2011) <doi:10.1016/j.jet.2010.10.008>, is a measure of segregation that is highly decomposable. The package provides tools to decompose the index by units and groups (local segregation), and by within and between terms. Includes standard error estimation by bootstrapping.
|
2025-09-21 |
|
croc
|
public |
Securely send things from one computer to another
|
2025-09-21 |
|
r-ridigbio
|
public |
An interface to iDigBio's search API that allows downloading specimen records. Searches are returned as a data.frame. Other functions such as the metadata end points return lists of information. iDigBio is a US project focused on digitizing and serving museum specimen collections on the web. See <https://www.idigbio.org> for information on iDigBio.
|
2025-09-21 |
|
r-sensemakr
|
public |
Implements a suite of sensitivity analysis tools that extends the traditional omitted variable bias framework and makes it easier to understand the impact of omitted variables in regression models, as discussed in Cinelli, C. and Hazlett, C. (2020), "Making Sense of Sensitivity: Extending Omitted Variable Bias." Journal of the Royal Statistical Society, Series B (Statistical Methodology) <doi:10.1111/rssb.12348>.
|
2025-09-21 |
|
r-mockthat
|
public |
With the deprecation of mocking capabilities shipped with 'testthat' as of 'edition 3' it is left to third-party packages to replace this functionality, which in some test-scenarios is essential in order to run unit tests in limited environments (such as no Internet connection). Mocking in this setting means temporarily substituting a function with a stub that acts in some sense like the original function (for example by serving a HTTP response that has been cached as a file). The only exported function 'with_mock()' is modeled after the eponymous 'testthat' function with the intention of providing a drop-in replacement.
|
2025-09-21 |
|
r-aiccmodavg
|
public |
Functions to implement model selection and multimodel inference based on Akaike's information criterion (AIC) and the second-order AIC (AICc), as well as their quasi-likelihood counterparts (QAIC, QAICc) from various model object classes. The package implements classic model averaging for a given parameter of interest or predicted values, as well as a shrinkage version of model averaging parameter estimates or effect sizes. The package includes diagnostics and goodness-of-fit statistics for certain model types including those of 'unmarkedFit' classes estimating demographic parameters after accounting for imperfect detection probabilities. Some functions also allow the creation of model selection tables for Bayesian models of the 'bugs', 'rjags', and 'jagsUI' classes. Functions also implement model selection using BIC. Objects following model selection and multimodel inference can be formatted to LaTeX using 'xtable' methods included in the package.
|
2025-09-21 |
|
r-kaos
|
public |
Sequences encoding by using the chaos game representation. Löchel et al. (2019) <doi:10.1101/575324>.
|
2025-09-21 |
|
r-predictnmb
|
public |
Estimates when and where a model-guided treatment strategy may outperform a treat-all or treat-none approach by Monte Carlo simulation and evaluation of the Net Monetary Benefit. Details can be viewed in Parsons et al. (2023) <doi:10.21105/joss.05328>.
|
2025-09-21 |
|
r-sentimentr
|
public |
Calculate text polarity sentiment at the sentence level and optionally aggregate by rows or grouping variable(s).
|
2025-09-21 |
|
r-d3heatmap
|
public |
Create interactive heat maps that are usable from the R console, in the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps. Hover the mouse pointer over a cell to show details, drag a rectangle to zoom, and click row/column labels to highlight.
|
2025-09-21 |
|
emoji
|
public |
Emoji for Python
|
2025-09-21 |
|
opentelemetry-instrumentation-weaviate
|
public |
OpenTelemetry Weaviate instrumentation
|
2025-09-21 |
|
r-comorbidity
|
public |
Computing comorbidity indices and scores such as the weighted Charlson score (Charlson, 1987 <doi:10.1016/0021-9681(87)90171-8>) and the Elixhauser comorbidity score (Elixhauser, 1998 <doi:10.1097/00005650-199801000-00004>) using ICD-9-CM or ICD-10 codes (Quan, 2005 <doi:10.1097/01.mlr.0000182534.19832.83>). Australian and Swedish modifications of the Charlson Comorbidity Index are available as well (Sundararajan, 2004 <doi:10.1016/j.jclinepi.2004.03.012> and Ludvigsson, 2021 <doi:10.2147/CLEP.S282475>).
|
2025-09-21 |
|
r-metstat
|
public |
A diverse collection of metabolomics related statistical tools.
|
2025-09-21 |
|
r-dummies
|
public |
Expands factors, characters and other eligible classes into dummy/indicator variables.
|
2025-09-21 |
|
gdal-csharp
|
public |
GDAL is a translator library for raster and vector geospatial data formats that is released under an
X/MIT style Open Source license by the Open Source Geospatial Foundation.
This package provides the C# and Unity interface to the library.
|
2025-09-21 |
|
r-rsnns
|
public |
The Stuttgart Neural Network Simulator (SNNS) is a library containing many standard implementations of neural networks. This package wraps the SNNS functionality to make it available from within R. Using the 'RSNNS' low-level interface, all of the algorithmic functionality and flexibility of SNNS can be accessed. Furthermore, the package contains a convenient high-level interface, so that the most common neural network topologies and learning algorithms integrate seamlessly into R.
|
2025-09-21 |
|
r-phater
|
public |
PHATE is a tool for visualizing high dimensional single-cell data with natural progressions or trajectories. PHATE uses a novel conceptual framework for learning and visualizing the manifold inherent to biological systems in which smooth transitions mark the progressions of cells from one state to another. To see how PHATE can be applied to single-cell RNA-seq datasets from hematopoietic stem cells, human embryonic stem cells, and bone marrow samples, check out our publication in Nature Biotechnology at <doi:10.1038/s41587-019-0336-3>.
|
2025-09-21 |
|
r-transphylo
|
public |
Inference of transmission tree from a dated phylogeny. Includes methods to simulate and analyse outbreaks. The methodology is described in Didelot et al. (2014) <doi:10.1093/molbev/msu121>, Didelot et al. (2017) <doi:10.1093/molbev/msw275>.
|
2025-09-21 |
|
r-complexupset
|
public |
UpSet plots are an improvement over Venn Diagram for set overlap visualizations. Striving to bring the best of the 'UpSetR' and 'ggplot2', this package offers a way to create complex overlap visualisations, using simple and familiar tools, i.e. geoms of 'ggplot2'. For introduction to UpSet concept, see Lex et al. (2014) <doi:10.1109/TVCG.2014.2346248>.
|
2025-09-21 |
|
r-slippymath
|
public |
Provides functions for performing common tasks when working with slippy map tile service APIs e.g. Google maps, Open Street Map, Mapbox, Stamen, among others. Functionality includes converting from latitude and longitude to tile numbers, determining tile bounding boxes, and compositing tiles to a georeferenced raster image.
|
2025-09-21 |
|
memprof
|
public |
A memory profiler for Python. As easy as adding a decorator.
|
2025-09-21 |
|
opentelemetry-instrumentation-transformers
|
public |
OpenTelemetry transformers instrumentation
|
2025-09-21 |
