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/_/ /      / / /____\/ /       \ \_\\ \/___/ /
\_\/       \/_________/         \/_/ \_____\/

Enter the query into the form above. You can look for specific version of a package by using @ symbol like this: gcc@10.

API method:

GET /api/packages?search=hello&page=1&limit=20

where search is your query, page is a page number and limit is a number of items on a single page. Pagination information (such as a number of pages and etc) is returned in response headers.

If you'd like to join our channel webring send a patch to ~whereiseveryone/toys@lists.sr.ht adding your channel as an entry in channels.scm.


r-strap 1.6-1
Propagated dependencies: r-pbapply@1.7-4 r-geoscale@2.0.1 r-ape@5.8-1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/graemetlloyd/strap
Licenses: GPL 2+
Build system: r
Synopsis: Stratigraphic Tree Analysis for Palaeontology
Description:

This package provides functions for the stratigraphic analysis of phylogenetic trees.

r-sunclarco 1.0.0
Propagated dependencies: r-survival@3.8-3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=Sunclarco
Licenses: GPL 3
Build system: r
Synopsis: Survival Analysis using Copulas
Description:

Survival analysis for unbalanced clusters using Archimedean copulas (Prenen et al. (2016) <DOI:10.1111/rssb.12174>).

r-srdpdata 0.1.0
Propagated dependencies: r-tibble@3.3.0 r-rlang@1.1.6 r-magrittr@2.0.4 r-dplyr@1.1.4
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/hgoers/sRdpData
Licenses: Expat
Build system: r
Synopsis: Strategies of Resistance Data Project
Description:

This package provides you with easy, programmatic access to SRDP data.

r-ssize-fdr 1.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=ssize.fdr
Licenses: GPL 3
Build system: r
Synopsis: Sample Size Calculations for Microarray Experiments
Description:

This package provides functions that calculate appropriate sample sizes for one-sample t-tests, two-sample t-tests, and F-tests for microarray experiments based on desired power while controlling for false discovery rates. For all tests, the standard deviations (variances) among genes can be assumed fixed or random. This is also true for effect sizes among genes in one-sample and two sample experiments. Functions also output a chart of power versus sample size, a table of power at different sample sizes, and a table of critical test values at different sample sizes.

r-simplegraph 1.0.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/gaborcsardi/simplegraph
Licenses: Expat
Build system: r
Synopsis: Simple Graph Data Types and Basic Algorithms
Description:

Simple classic graph algorithms for simple graph classes. Graphs may possess vertex and edge attributes. simplegraph has no dependencies and it is written entirely in R, so it is easy to install.

r-sodavis 1.2
Propagated dependencies: r-nnet@7.3-20 r-mvtnorm@1.3-3 r-mass@7.3-65
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=sodavis
Licenses: GPL 2
Build system: r
Synopsis: SODA: Main and Interaction Effects Selection for Logistic Regression, Quadratic Discriminant and General Index Models
Description:

Variable and interaction selection are essential to classification in high-dimensional setting. In this package, we provide the implementation of SODA procedure, which is a forward-backward algorithm that selects both main and interaction effects under logistic regression and quadratic discriminant analysis. We also provide an extension, S-SODA, for dealing with the variable selection problem for semi-parametric models with continuous responses.

r-snpfiltr 1.0.7
Propagated dependencies: r-vcfr@1.15.0 r-rtsne@0.17 r-gridextra@2.3 r-ggridges@0.5.7 r-ggplot2@4.0.1 r-cluster@2.1.8.1 r-adegenet@2.1.11
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=SNPfiltR
Licenses: Expat
Build system: r
Synopsis: Interactively Filter SNP Datasets
Description:

Is designed to interactively and reproducibly visualize and filter SNP (single-nucleotide polymorphism) datasets. This R-based implementation of SNP and genotype filters facilitates an interactive and iterative SNP filtering pipeline, which can be documented reproducibly via rmarkdown'. SNPfiltR contains functions for visualizing various quality and missing data metrics for a SNP dataset, and then filtering the dataset based on user specified cutoffs. All functions take vcfR objects as input, which can easily be generated by reading standard vcf (variant call format) files into R using the R package vcfR authored by Knaus and Grünwald (2017) <doi:10.1111/1755-0998.12549>. Each SNPfiltR function can return a newly filtered vcfR object, which can then be written to a local directory in standard vcf format using the vcfR package, for downstream population genetic and phylogenetic analyses.

r-spthin 0.2.0
Propagated dependencies: r-spam@2.11-1 r-knitr@1.50 r-fields@17.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=spThin
Licenses: GPL 3
Build system: r
Synopsis: Functions for Spatial Thinning of Species Occurrence Records for Use in Ecological Models
Description:

This package provides a set of functions that can be used to spatially thin species occurrence data. The resulting thinned data can be used in ecological modeling, such as ecological niche modeling.

r-ship 2.0.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/vguillemot/SHIP
Licenses: GPL 2+
Build system: r
Synopsis: Shrinkage Covariance Incorporating Prior Knowledge
Description:

This package implements estimation methods for shrinkage covariance matrices using user-specified covariance targets. The covariance target is a structured matrix towards which the unbiased sample covariance is shrunk, optionally incorporating prior knowledge. Shrinkage intensity is computed analytically. The method is described and applied to microarray gene expression data in Jelizarow et al. (2010) <doi:10.1093/bioinformatics/btq323>.

r-stdreg2 1.0.3
Propagated dependencies: r-survival@3.8-3 r-generics@0.1.4 r-drgee@1.1.10-4 r-data-table@1.17.8
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://sachsmc.github.io/stdReg2/
Licenses: AGPL 3+
Build system: r
Synopsis: Regression Standardization for Causal Inference
Description:

This package contains more modern tools for causal inference using regression standardization. Four general classes of models are implemented; generalized linear models, conditional generalized estimating equation models, Cox proportional hazards models, and shared frailty gamma-Weibull models. Methodological details are described in Sjölander, A. (2016) <doi:10.1007/s10654-016-0157-3>. Also includes functionality for doubly robust estimation for generalized linear models in some special cases, and the ability to implement custom models.

r-sfinx 1.7.99
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: http://sfinx.ugent.be
Licenses: ASL 2.0
Build system: r
Synopsis: Straightforward Filtering Index for AP-MS Data Analysis (SFINX)
Description:

The straightforward filtering index (SFINX) identifies true positive protein interactions in a fast, user-friendly, and highly accurate way. It is not only useful for the filtering of affinity purification - mass spectrometry (AP-MS) data, but also for similar types of data resulting from other co-complex interactomics technologies, such as TAP-MS, Virotrap and BioID. SFINX can also be used via the website interface at <http://sfinx.ugent.be>.

r-shinyexprportal 1.2.1
Propagated dependencies: r-yaml@2.3.10 r-vegawidget@0.5.0 r-tidyr@1.3.1 r-shinyhelper@0.3.2 r-shiny@1.11.1 r-rlang@1.1.6 r-rfast@2.1.5.2 r-qvalue@2.42.0 r-markdown@2.0 r-iheatmapr@0.7.1 r-htmltools@0.5.8.1 r-dt@0.34.0 r-dplyr@1.1.4 r-data-table@1.17.8 r-config@0.3.2 r-cli@3.6.5 r-bslib@0.9.0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://c4tb.github.io/shinyExprPortal/
Licenses: Expat
Build system: r
Synopsis: Configurable 'shiny' Portal for Sharing Analysis of Molecular Expression Data
Description:

Enables deploying configuration file-based shiny apps with minimal programming for interactive exploration and analysis showcase of molecular expression data. For exploration, supports visualization of correlations between rows of an expression matrix and a table of observations, such as clinical measures, and comparison of changes in expression over time. For showcase, enables visualizing the results of differential expression from package such as limma', co-expression modules from WGCNA and lower dimensional projections.

r-startr 3.0.0
Propagated dependencies: r-stringr@1.6.0 r-s2dv@2.2.1 r-multiapply@2.1.5 r-future@1.68.0 r-easyncdf@0.1.4 r-climprojdiags@0.3.5 r-bigmemory@4.6.4 r-abind@1.4-8
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://earth.bsc.es/gitlab/es/startR/
Licenses: GPL 3
Build system: r
Synopsis: Automatically Retrieve Multidimensional Distributed Data Sets
Description:

Automatically fetch, transform and arrange subsets of multidimensional data sets (collections of files) stored in local and/or remote file systems or servers, using multicore capabilities where possible. This tool provides an interface to perceive a collection of data sets as a single large multidimensional data array, and enables the user to request for automatic retrieval, processing and arrangement of subsets of the large array. Wrapper functions to add support for custom file formats can be plugged in/out, making the tool suitable for any research field where large multidimensional data sets are involved.

r-script 0.1.3
Propagated dependencies: r-rstudioapi@0.17.1 r-knitr@1.50
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=script
Licenses: GPL 3
Build system: r
Synopsis: Identify Script Name
Description:

Identifies the name of the current script in a variety of contexts, e.g. interactively or when sourced. Attempts to support RStudio environment. Based on <https://stackoverflow.com/a/32016824/2292993> and <https://stackoverflow.com/a/35842176/2292993>.

r-shortirt 1.0.0
Propagated dependencies: r-ggplot2@4.0.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=shortIRT
Licenses: Expat
Build system: r
Synopsis: Procedures Based on Item Response Theory Models for the Development of Short Test Forms
Description:

Implement different Item Response Theory (IRT) based procedures for the development of static short test forms (STFs) from a test. Two main procedures are considered (Epifania, Anselmi & Robusto, 2022 <doi:10.1007/978-3-031-27781-8_7>). The procedures differ in how the most informative items are selected for the inclusion in the STF, either by considering their item information functions without any reference to any specific latent trait level (benchmark procedure) or by considering their information with respect to specific latent trait levels, denoted as theta targets (theta target procedure). Three methods are implemented for the definition of the theta targets: (i) as the midpoints of equal intervals on the latent trait, (ii) as the centroids of the clusters obtained by clustering the latent trait, and (iii) as user-defined values. Importantly, the number of theta targets defines the number of items included in the STF. For further details on the procedure, please refer to Epifania, Anselmi & Robusto (2022) <doi:10.1007/978-3-031-27781-8_7>.

r-sedproxy 0.7.6
Propagated dependencies: r-tidyr@1.3.1 r-rlang@1.1.6 r-mvtnorm@1.3-3 r-ggplot2@4.0.1 r-dplyr@1.1.4
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://earthsystemdiagnostics.github.io/sedproxy/
Licenses: Expat
Build system: r
Synopsis: Simulation of Sediment Archived Climate Proxy Records
Description:

Proxy forward modelling for sediment archived climate proxies such as Mg/Ca, d18O or Alkenones. The user provides a hypothesised "true" past climate, such as output from a climate model, and details of the sedimentation rate and sampling scheme of a sediment core. Sedproxy returns simulated proxy records. Implements the methods described in Dolman and Laepple (2018) <doi:10.5194/cp-14-1851-2018>.

r-sanitytracker 0.1.0
Propagated dependencies: r-data-table@1.17.8 r-checkmate@2.3.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/MarselScheer/sanityTracker
Licenses: GPL 3
Build system: r
Synopsis: Keeps Track of all Performed Sanity Checks
Description:

During the preparation of data set(s) one usually performs some sanity checks. The idea is that irrespective of where the checks are performed, they are centralized by this package in order to list all at once with examples if a check failed.

r-sjsdm 1.0.7
Propagated dependencies: r-viridis@0.6.5 r-scales@1.4.0 r-rstudioapi@0.17.1 r-reticulate@1.44.1 r-qgam@2.0.0 r-mvtnorm@1.3-3 r-mgcv@1.9-4 r-metrics@0.1.4 r-mathjaxr@1.8-0 r-ggplot2@4.0.1 r-crayon@1.5.3 r-cli@3.6.5 r-checkmate@2.3.3 r-beeswarm@0.4.0 r-abind@1.4-8
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/TheoreticalEcology/s-jSDM/
Licenses: GPL 3
Build system: r
Synopsis: Scalable Joint Species Distribution Modeling
Description:

This package provides a scalable and fast method for estimating joint Species Distribution Models (jSDMs) for big community data, including eDNA data. The package estimates a full (i.e. non-latent) jSDM with different response distributions (including the traditional multivariate probit model). The package allows to perform variation partitioning (VP) / ANOVA on the fitted models to separate the contribution of environmental, spatial, and biotic associations. In addition, the total R-squared can be further partitioned per species and site to reveal the internal metacommunity structure, see Leibold et al., <doi:10.1111/oik.08618>. The internal structure can then be regressed against environmental and spatial distinctiveness, richness, and traits to analyze metacommunity assembly processes. The package includes support for accounting for spatial autocorrelation and the option to fit responses using deep neural networks instead of a standard linear predictor. As described in Pichler & Hartig (2021) <doi:10.1111/2041-210X.13687>, scalability is achieved by using a Monte Carlo approximation of the joint likelihood implemented via PyTorch and reticulate', which can be run on CPUs or GPUs.

r-shinymaterial 1.2.0
Propagated dependencies: r-shiny@1.11.1 r-sass@0.4.10 r-jsonlite@2.0.0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://ericrayanderson.github.io/shinymaterial/
Licenses: GPL 3 FSDG-compatible
Build system: r
Synopsis: Implement Material Design in Shiny Applications
Description:

Allows shiny developers to incorporate UI elements based on Google's Material design. See <https://material.io/guidelines/> for more information.

r-swash 1.3.1
Propagated dependencies: r-zoo@1.8-14 r-strucchange@1.5-4 r-spdep@1.4-1 r-sf@1.0-23 r-lubridate@1.9.4
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=swash
Licenses: GPL 2+
Build system: r
Synopsis: Swash-Backwash Model for the Single Epidemic Wave
Description:

The Swash-Backwash Model for the Single Epidemic Wave was developed by Cliff and Haggett (2006) <doi:10.1007/s10109-006-0027-8> to model the velocity of spread of infectious diseases across space. This package enables the calculation of the Swash-Backwash Model for user-supplied panel data on regional infections. The package provides additional functions for bootstrap confidence intervals, country comparison, visualization of results, and data management. Furthermore, it contains several functions for analysis and visualization of (spatial) infection data.

r-spscomps 0.3.4.0
Propagated dependencies: r-stringr@1.6.0 r-shinytoastr@2.2.0 r-shinyace@0.4.4 r-shiny@1.11.1 r-r6@2.6.1 r-magrittr@2.0.4 r-htmltools@0.5.8.1 r-glue@1.8.0 r-crayon@1.5.3 r-assertthat@0.2.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/lz100/spsComps
Licenses: GPL 3+
Build system: r
Synopsis: 'systemPipeShiny' UI and Server Components
Description:

The systemPipeShiny (SPS) framework comes with many UI and server components. However, installing the whole framework is heavy and takes some time. If you would like to use UI and server components from SPS in your own Shiny apps, do not hesitate to try this package.

r-serrsbayes 0.5-0
Propagated dependencies: r-truncnorm@1.0-9 r-rcppeigen@0.3.4.0.2 r-rcpp@1.1.0 r-matrix@1.7-4
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/mooresm/serrsBayes
Licenses: GPL 2+ FSDG-compatible
Build system: r
Synopsis: Bayesian Modelling of Raman Spectroscopy
Description:

Sequential Monte Carlo (SMC) algorithms for fitting a generalised additive mixed model (GAMM) to surface-enhanced resonance Raman spectroscopy (SERRS), using the method of Moores et al. (2016) <arXiv:1604.07299>. Multivariate observations of SERRS are highly collinear and lend themselves to a reduced-rank representation. The GAMM separates the SERRS signal into three components: a sequence of Lorentzian, Gaussian, or pseudo-Voigt peaks; a smoothly-varying baseline; and additive white noise. The parameters of each component of the model are estimated iteratively using SMC. The posterior distributions of the parameters given the observed spectra are represented as a population of weighted particles.

r-smartmap 0.2.0
Propagated dependencies: r-sf@1.0-23 r-magrittr@2.0.4 r-leaflet@2.2.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/s-fleck/smartmap
Licenses: Expat
Build system: r
Synopsis: Smartly Create Maps from R Objects
Description:

Preview spatial data as leaflet maps with minimal effort. smartmap is optimized for interactive use and distinguishes itself from similar packages because it does not need real spatial ('sp or sf') objects an input; instead, it tries to automatically coerce everything that looks like spatial data to sf objects or leaflet maps. It - for example - supports direct mapping of: a vector containing a single coordinate pair, a two column matrix, a data.frame with longitude and latitude columns, or the path or URL to a (possibly compressed) shapefile'.

r-scsorter 0.0.2
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=scSorter
Licenses: GPL 3
Build system: r
Synopsis: Implementation of 'scSorter' Algorithm
Description:

This package implements the algorithm described in Guo, H., and Li, J., "scSorter: assigning cells to known cell types according to known marker genes". Cluster cells to known cell types based on marker genes specified for each cell type.

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