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

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-syllabifyr 0.1.1
Propagated dependencies: r-tidyr@1.3.1 r-tibble@3.3.0 r-stringr@1.6.0 r-purrr@1.2.0 r-dplyr@1.1.4
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=syllabifyr
Licenses: Expat
Build system: r
Synopsis: Syllabifier for CMU Dictionary Transcriptions
Description:

This package implements tidy syllabification of transcription. Based on @kylebgorman's python implementation <https://github.com/kylebgorman/syllabify>.

r-sudachir 0.1.0
Dependencies: python@3.11.14
Propagated dependencies: r-tidyselect@1.2.1 r-tibble@3.3.0 r-rlang@1.1.6 r-reticulate@1.44.1 r-purrr@1.2.0 r-magrittr@2.0.4 r-glue@1.8.0 r-dplyr@1.1.4 r-cli@3.6.5
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/uribo/sudachir
Licenses: ASL 2.0
Build system: r
Synopsis: R Interface to 'Sudachi'
Description:

Interface to Sudachi <https://github.com/WorksApplications/Sudachi>, a Japanese morphological analyzer. This is a port of what is available in Python.

r-support-bws2 0.4-0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=support.BWS2
Licenses: GPL 2+
Build system: r
Synopsis: Tools for Case 2 Best-Worst Scaling
Description:

This package provides three basic functions that support an implementation of Case 2 (profile case) best-worst scaling. The first is to convert an orthogonal main-effect design into questions, the second is to create a dataset suitable for analysis, and the third is to calculate count-based scores. For details, see Aizaki and Fogarty (2019) <doi:10.1016/j.jocm.2019.100171>.

r-serofoi 1.0.3
Propagated dependencies: r-tidyr@1.3.1 r-tibble@3.3.0 r-stanheaders@2.32.10 r-rstantools@2.5.0 r-rstan@2.32.7 r-rcppparallel@5.1.11-1 r-rcppeigen@0.3.4.0.2 r-rcpp@1.1.0 r-purrr@1.2.0 r-loo@2.8.0 r-glue@1.8.0 r-ggplot2@4.0.1 r-expm@1.0-0 r-dplyr@1.1.4 r-cowplot@1.2.0 r-config@0.3.2 r-checkmate@2.3.3 r-bh@1.87.0-1 r-bayesplot@1.14.0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/epiverse-trace/serofoi
Licenses: Expat
Build system: r
Synopsis: Bayesian Estimation of the Force of Infection from Serological Data
Description:

Estimating the force of infection from time varying, age varying, or constant serocatalytic models from population based seroprevalence studies using a Bayesian framework, including data simulation functions enabling the generation of serological surveys based on this models. This tool also provides a flexible prior specification syntax for the force of infection and the seroreversion rate, as well as methods to assess model convergence and comparison criteria along with useful visualisation functions.

r-sgolay 1.0.3
Propagated dependencies: r-signal@1.8-1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/zeehio/sgolay
Licenses: GPL 2+
Build system: r
Synopsis: Efficient Savitzky-Golay Filtering
Description:

Smoothing signals and computing their derivatives is a common requirement in signal processing workflows. Savitzky-Golay filters are a established method able to do both (Savitzky and Golay, 1964 <doi:10.1021/ac60214a047>). This package implements one dimensional Savitzky-Golay filters that can be applied to vectors and matrices (either row-wise or column-wise). Vectorization and memory allocations have been profiled to reduce computational fingerprint. Short filter lengths are implemented in the direct space, while longer filters are implemented in frequency space, using a Fast Fourier Transform (FFT).

r-softbib 0.0.2
Propagated dependencies: r-rmarkdown@2.30 r-renv@1.1.5 r-checkmate@2.3.3 r-bibtex@0.5.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/vincentarelbundock/softbib
Licenses: GPL 3+
Build system: r
Synopsis: Software Bibliographies for R Projects
Description:

Detect libraries used in a project and automatically create software bibliographies in PDF', Word', Rmarkdown', and BibTeX formats.

r-simulist 0.7.0
Propagated dependencies: r-rlang@1.1.6 r-randomnames@1.6-0.0 r-grates@1.7.1 r-epiparameter@0.4.1 r-english@1.2-6 r-checkmate@2.3.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/epiverse-trace/simulist
Licenses: Expat
Build system: r
Synopsis: Simulate Disease Outbreak Line List and Contacts Data
Description:

This package provides tools to simulate realistic raw case data for an epidemic in the form of line lists and contacts using a branching process. Simulated outbreaks are parameterised with epidemiological parameters and can have age-structured populations, age-stratified hospitalisation and death risk and time-varying case fatality risk.

r-scpubr 3.0.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/enblacar/SCpubr/
Licenses: GPL 3
Build system: r
Synopsis: Generate Publication Ready Visualizations of Single Cell Transcriptomics Data
Description:

This package provides a system that provides a streamlined way of generating publication ready plots for known Single-Cell transcriptomics data in a â publication readyâ format. This is, the goal is to automatically generate plots with the highest quality possible, that can be used right away or with minimal modifications for a research article.

r-smetlite 0.2.10
Propagated dependencies: r-stringr@1.6.0 r-readr@2.1.6
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/BaselDataScience/smetlite
Licenses: GPL 3+
Build system: r
Synopsis: Read and Write SMET Files
Description:

Simple class to hold contents of a SMET file as specified in Bavay (2021) <https://code.wsl.ch/snow-models/meteoio/-/blob/master/doc/SMET_specifications.pdf>. There numerical meteorological measurements are all based on MKS (SI) units and timestamp is standardized to UTC time.

r-smartdesign 0.74
Propagated dependencies: 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=smartDesign
Licenses: GPL 3+
Build system: r
Synopsis: Sequential Multiple Assignment Randomized Trial Design
Description:

SMART trial design, as described by He, J., McClish, D., Sabo, R. (2021) <doi:10.1080/19466315.2021.1883472>, includes multiple stages of randomization, where participants are randomized to an initial treatment in the first stage and then subsequently re-randomized between treatments in the following stage.

r-seguid 0.1.0
Propagated dependencies: r-digest@0.6.39 r-base64enc@0.1-3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://www.seguid.org/
Licenses: Expat
Build system: r
Synopsis: Sequence Globally Unique Identifier (SEGUID) Checksums
Description:

Implementation of the original Sequence Globally Unique Identifier (SEGUID) algorithm [Babnigg and Giometti (2006) <doi:10.1002/pmic.200600032>] and SEGUID v2 (<https://www.seguid.org>), which extends SEGUID v1 with support for linear, circular, single- and double-stranded biological sequences, e.g. DNA, RNA, and proteins.

r-sticky 0.5.6.1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=sticky
Licenses: GPL 2 FSDG-compatible
Build system: r
Synopsis: Persist Attributes Across Data Operations
Description:

In base R, object attributes are lost when objects are modified by common data operations such as subset, filter, slice, append, extract etc. This packages allows objects to be marked as sticky and have attributes persisted during these operations or when inserted into or extracted from list-like or table-like objects.

r-smoke 2.0.1
Propagated dependencies: r-rdpack@2.6.4
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=smoke
Licenses: GPL 2 GPL 3
Build system: r
Synopsis: Small Molecule Octet/BLI Kinetics Experiment
Description:

Bio-Layer Interferometry (BLI) is a technology to determine the binding kinetics between biomolecules. BLI signals are small and noisy when small molecules are investigated as ligands (analytes). We develop this package to process and analyze the BLI data acquired on Octet Red96 from Fortebio more accurately. Sun Q., Li X., et al (2020) <doi:10.1038/s41467-019-14238-3>. In this new version, we organize the BLI experiment data and analysis methods into a S4 class with self-explaining structure.

r-settest 0.3.0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=SetTest
Licenses: GPL 2
Build system: r
Synopsis: Group Testing Procedures for Signal Detection and Goodness-of-Fit
Description:

It provides cumulative distribution function (CDF), quantile, p-value, statistical power calculator and random number generator for a collection of group-testing procedures, including the Higher Criticism tests, the one-sided Kolmogorov-Smirnov tests, the one-sided Berk-Jones tests, the one-sided phi-divergence tests, etc. The input are a group of p-values. The null hypothesis is that they are i.i.d. Uniform(0,1). In the context of signal detection, the null hypothesis means no signals. In the context of the goodness-of-fit testing, which contrasts a group of i.i.d. random variables to a given continuous distribution, the input p-values can be obtained by the CDF transformation. The null hypothesis means that these random variables follow the given distribution. For reference, see [1]Hong Zhang, Jiashun Jin and Zheyang Wu. "Distributions and power of optimal signal-detection statistics in finite case", IEEE Transactions on Signal Processing (2020) 68, 1021-1033; [2] Hong Zhang and Zheyang Wu. "The general goodness-of-fit tests for correlated data", Computational Statistics & Data Analysis (2022) 167, 107379.

r-socialrisk 0.5.1
Propagated dependencies: r-tidyselect@1.2.1 r-tidyr@1.3.1 r-stringr@1.6.0 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/WYATTBENSKEN/multimorbidity
Licenses: Expat
Build system: r
Synopsis: Identifying Patient Social Risk from Administrative Health Care Data
Description:

Social risks are increasingly becoming a critical component of health care research. One of the most common ways to identify social needs is by using ICD-10-CM "Z-codes." This package identifies social risks using varying taxonomies of ICD-10-CM Z-codes from administrative health care data. The conceptual taxonomies come from: Centers for Medicare and Medicaid Services (2021) <https://www.cms.gov/files/document/zcodes-infographic.pdf>, Reidhead (2018) <https://web.mhanet.com/>, A Arons, S DeSilvey, C Fichtenberg, L Gottlieb (2018) <https://sirenetwork.ucsf.edu/tools-resources/resources/compendium-medical-terminology-codes-social-risk-factors>.

r-strvalidator 2.4.2
Propagated dependencies: r-scales@1.4.0 r-plyr@1.8.9 r-plotly@4.11.0 r-mass@7.3-65 r-gwidgets2tcltk@1.0-9 r-gwidgets2@1.0-10 r-gtable@0.3.6 r-gridextra@2.3 r-ggplot2@4.0.1 r-dt@0.34.0 r-dplyr@1.1.4 r-data-table@1.17.8
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://sites.google.com/site/forensicapps/strvalidator
Licenses: GPL 2
Build system: r
Synopsis: Process Control and Validation of Forensic STR Kits
Description:

An open source platform for validation and process control. Tools to analyze data from internal validation of forensic short tandem repeat (STR) kits are provided. The tools are developed to provide the necessary data to conform with guidelines for internal validation issued by the European Network of Forensic Science Institutes (ENFSI) DNA Working Group, and the Scientific Working Group on DNA Analysis Methods (SWGDAM). A front-end graphical user interface is provided. More information about each function can be found in the respective help documentation.

r-stand 2.0
Propagated dependencies: r-survival@3.8-3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: http://www.csm.ornl.gov/esh/statoed/
Licenses: GPL 2+
Build system: r
Synopsis: Statistical Analysis of Non-Detects
Description:

This package provides functions for the analysis of occupational and environmental data with non-detects. Maximum likelihood (ML) methods for censored log-normal data and non-parametric methods based on the product limit estimate (PLE) for left censored data are used to calculate all of the statistics recommended by the American Industrial Hygiene Association (AIHA) for the complete data case. Functions for the analysis of complete samples using exact methods are also provided for the lognormal model. Revised from 2007-11-05 survfit~1'.

r-scstability 1.0.3
Propagated dependencies: r-vegan@2.7-2 r-uwot@0.2.4 r-seurat@5.3.1 r-rtsne@0.17 r-rlang@1.1.6 r-pcapp@2.0-5 r-magrittr@2.0.4 r-ggplot2@4.0.1 r-future-apply@1.20.0 r-future@1.68.0 r-aricode@1.0.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=scStability
Licenses: Expat
Build system: r
Synopsis: Measuring the Stability of Dimension Reduction and Cluster Assignment in scRNA-Seq Experiments
Description:

This package provides functions for evaluating the stability of low-dimensional embeddings and cluster assignments in singleâ cell RNA sequencing (scRNAâ seq) datasets. Starting from a principal component analysis (PCA) object, users can generate multiple replicates of tâ Distributed Stochastic Neighbor Embedding (tâ SNE) or Uniform Manifold Approximation and Projection (UMAP) embeddings. Embedding stability is quantified by computing pairwise Kendallâ s Tau correlations across replicates and summarizing the distribution of correlation coefficients. In addition to dimensionality reduction, scStability assesses clustering consistency using either Louvain or Leiden algorithms and calculating the Normalized Mutual Information (NMI) between all pairs of cluster assignments. For background on UMAP and t-SNE algorithms, see McInnes et al. (2020, <doi:10.21105/joss.00861>) and van der Maaten & Hinton (2008, <https://github.com/lvdmaaten/bhtsne>), respectively.

r-sentometrics 1.0.1
Propagated dependencies: r-stringi@1.8.7 r-rcpproll@0.3.1 r-rcppparallel@5.1.11-1 r-rcpparmadillo@15.2.2-1 r-rcpp@1.1.0 r-quanteda@4.3.1 r-isoweek@0.6-2 r-glmnet@4.1-10 r-ggplot2@4.0.1 r-foreach@1.5.2 r-data-table@1.17.8 r-caret@7.0-1
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://sentometrics-research.com/sentometrics/
Licenses: GPL 2+
Build system: r
Synopsis: An Integrated Framework for Textual Sentiment Time Series Aggregation and Prediction
Description:

Optimized prediction based on textual sentiment, accounting for the intrinsic challenge that sentiment can be computed and pooled across texts and time in various ways. See Ardia et al. (2021) <doi:10.18637/jss.v099.i02>.

r-strata 1.4.5
Propagated dependencies: r-tibble@3.3.0 r-stringr@1.6.0 r-rlang@1.1.6 r-readr@2.1.6 r-purrr@1.2.0 r-lifecycle@1.0.4 r-glue@1.8.0 r-fs@1.6.6 r-dplyr@1.1.4 r-checkmate@2.3.3
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/asenetcky/strata
Licenses: Expat
Build system: r
Synopsis: Simple Framework for Simple Automation
Description:

Build a project framework for users with access to only the most basic of automation tools.

r-sigugr 1.0.0
Propagated dependencies: r-terra@1.8-86 r-snakecase@0.11.1 r-sf@1.0-23 r-rpostgis@1.6.0 r-jsonlite@2.0.0 r-httr@1.4.7 r-gdalutilities@1.2.5 r-clc@1.0.0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://josesamos.github.io/sigugr/
Licenses: Expat
Build system: r
Synopsis: Workflow for Geographic Data
Description:

Streamlines geographic data transformation, storage and publication, simplifying data preparation and enhancing interoperability across formats and platforms.

r-ssnbler 1.1.1
Propagated dependencies: r-withr@3.0.2 r-ssn2@0.4.0 r-sf@1.0-23 r-rsqlite@2.4.4 r-pdist@1.2.1 r-igraph@2.2.1 r-foreach@1.5.2 r-dplyr@1.1.4 r-doparallel@1.0.17
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://github.com/pet221/SSNbler
Licenses: GPL 3+
Build system: r
Synopsis: Assemble 'SSN' Objects
Description:

Import, create and assemble data needed to fit spatial-statistical stream-network models using the SSN2 package for R'. Streams, observations, and prediction locations are represented as simple features and specific tools provided to define topological relationships between features; calculate the hydrologic distances (with flow-direction preserved) and the spatial additive function used to weight converging stream segments; and export the topological, spatial, and attribute information to an `SSN` (spatial stream network) object, which can be efficiently stored, accessed and analysed in R'. A detailed description of methods used to calculate and format the spatial data can be found in Peterson, E.E. and Ver Hoef, J.M., (2014) <doi:10.18637/jss.v056.i02>.

r-shazam 1.3.1
Propagated dependencies: r-tidyselect@1.2.1 r-tidyr@1.3.1 r-stringi@1.8.7 r-seqinr@4.2-36 r-scales@1.4.0 r-rlang@1.1.6 r-progress@1.2.3 r-mass@7.3-65 r-lazyeval@0.2.2 r-kernsmooth@2.23-26 r-iterators@1.0.14 r-igraph@2.2.1 r-ggplot2@4.0.1 r-foreach@1.5.2 r-dplyr@1.1.4 r-doparallel@1.0.17 r-diptest@0.77-2 r-ape@5.8-1 r-alakazam@1.4.2
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: http://shazam.readthedocs.io
Licenses: AGPL 3
Build system: r
Synopsis: Immunoglobulin Somatic Hypermutation Analysis
Description:

This package provides a computational framework for analyzing mutations in immunoglobulin (Ig) sequences. Includes methods for Bayesian estimation of antigen-driven selection pressure, mutational load quantification, building of somatic hypermutation (SHM) models, and model-dependent distance calculations. Also includes empirically derived models of SHM for both mice and humans. Citations: Gupta and Vander Heiden, et al (2015) <doi:10.1093/bioinformatics/btv359>, Yaari, et al (2012) <doi:10.1093/nar/gks457>, Yaari, et al (2013) <doi:10.3389/fimmu.2013.00358>, Cui, et al (2016) <doi:10.4049/jimmunol.1502263>.

r-spev 1.0.0
Channel: guix-cran
Location: guix-cran/packages/s.scm (guix-cran packages s)
Home page: https://cran.r-project.org/package=SPEV
Licenses: GPL 2+
Build system: r
Synopsis: Unsmoothed and Smoothed Penalized PCA using Nesterov Smoothing
Description:

We provide functionality to implement penalized PCA with an option to smooth the objective function using Nesterov smoothing. Two functions are available to compute a user-specified number of eigenvectors. The function unsmoothed_penalized_EV() computes a penalized PCA without smoothing and has three parameters (the input matrix, the Lasso penalty, and the number of desired eigenvectors). The function smoothed_penalized_EV() computes a smoothed penalized PCA using the same parameters and additionally requires the specification of a smoothing parameter. Both functions return a matrix having the desired eigenvectors as columns.

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