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      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
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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-ragene11stprobeset-db 8.8.0
Propagated dependencies: r-org-rn-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/ragene11stprobeset.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix ragene11 annotation data (chip ragene11stprobeset)
Description:

Affymetrix ragene11 annotation data (chip ragene11stprobeset) assembled using data from public repositories.

r-rrdpdata 1.30.0
Propagated dependencies: r-rrdp@1.44.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/mhahsler/rRDP
Licenses: GPL 2
Build system: r
Synopsis: Databases for the Default RDP Classifier
Description:

The package provides the data for the RDP Classifier 2.14 released in August 2023. It contains the latest bacterial and archaeal taxonomy training set No. 19 as described in Wang Q, Cole JR. 2024. Updated RDP taxonomy and RDP Classifier for more accurate taxonomic classification. Microbiol Resour Announc 0:e01063-23. <doi.org/10.1128/mra.01063-23>.

r-rbcbook1 1.78.0
Propagated dependencies: r-rpart@4.1.24 r-graph@1.88.0 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: http://www.biostat.harvard.edu/~carey
Licenses: Artistic License 2.0
Build system: r
Synopsis: Support for Springer monograph on Bioconductor
Description:

tools for building book.

r-ruvnormalizedata 1.30.0
Propagated dependencies: r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RUVnormalizeData
Licenses: GPL 3
Build system: r
Synopsis: Gender data for the RUVnormalize package
Description:

Microarray gene expression data from the study of Vawter et al., 2004.

r-rmspc 1.16.0
Propagated dependencies: r-stringr@1.6.0 r-rtracklayer@1.70.0 r-processx@3.8.6 r-genomicranges@1.62.0 r-biocmanager@1.30.27
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://genometric.github.io/MSPC/
Licenses: GPL 3
Build system: r
Synopsis: Multiple Sample Peak Calling
Description:

The rmspc package runs MSPC (Multiple Sample Peak Calling) software using R. The analysis of ChIP-seq samples outputs a number of enriched regions (commonly known as "peaks"), each indicating a protein-DNA interaction or a specific chromatin modification. When replicate samples are analyzed, overlapping peaks are expected. This repeated evidence can therefore be used to locally lower the minimum significance required to accept a peak. MSPC uses combined evidence from replicated experiments to evaluate peak calling output, rescuing peaks, and reduce false positives. It takes any number of replicates as input and improves sensitivity and specificity of peak calling on each, and identifies consensus regions between the input samples.

r-ragene10stprobeset-db 8.8.0
Propagated dependencies: r-org-rn-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/ragene10stprobeset.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix ragene10 annotation data (chip ragene10stprobeset)
Description:

Affymetrix ragene10 annotation data (chip ragene10stprobeset) assembled using data from public repositories.

r-rae230a-db 3.13.0
Propagated dependencies: r-org-rn-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/rae230a.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix RAE230A Array annotation data (chip rae230a)
Description:

Affymetrix Affymetrix RAE230A Array annotation data (chip rae230a) assembled using data from public repositories.

r-roseq 1.22.0
Propagated dependencies: r-pbmcapply@1.5.1 r-limma@3.66.0 r-edger@4.8.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/krishan57gupta/ROSeq
Licenses: GPL 3
Build system: r
Synopsis: Modeling expression ranks for noise-tolerant differential expression analysis of scRNA-Seq data
Description:

ROSeq - A rank based approach to modeling gene expression with filtered and normalized read count matrix. ROSeq takes filtered and normalized read matrix and cell-annotation/condition as input and determines the differentially expressed genes between the contrasting groups of single cells. One of the input parameters is the number of cores to be used.

r-rae230acdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/rae230acdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: rae230acdf
Description:

This package provides a package containing an environment representing the RAE230A.CDF file.

r-rucova 1.2.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/molsysbio/RUCova
Licenses: GPL 3
Build system: r
Synopsis: Removes unwanted covariance from mass cytometry data
Description:

Mass cytometry enables the simultaneous measurement of dozens of protein markers at the single-cell level, producing high dimensional datasets that provide deep insights into cellular heterogeneity and function. However, these datasets often contain unwanted covariance introduced by technical variations, such as differences in cell size, staining efficiency, and instrument-specific artifacts, which can obscure biological signals and complicate downstream analysis. This package addresses this challenge by implementing a robust framework of linear models designed to identify and remove these sources of unwanted covariance. By systematically modeling and correcting for technical noise, the package enhances the quality and interpretability of mass cytometry data, enabling researchers to focus on biologically relevant signals.

r-regionreport 1.44.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/leekgroup/regionReport
Licenses: Artistic License 2.0
Build system: r
Synopsis: Generate HTML or PDF reports for a set of genomic regions or DESeq2/edgeR results
Description:

Generate HTML or PDF reports to explore a set of regions such as the results from annotation-agnostic expression analysis of RNA-seq data at base-pair resolution performed by derfinder. You can also create reports for DESeq2 or edgeR results.

r-rnu34-db 3.13.0
Propagated dependencies: r-org-rn-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/rnu34.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix RN_U34 Array annotation data (chip rnu34)
Description:

Affymetrix Affymetrix RN_U34 Array annotation data (chip rnu34) assembled using data from public repositories.

r-rdrtoolbox 1.60.0
Propagated dependencies: r-rgl@1.3.31 r-mass@7.3-65
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RDRToolbox
Licenses: GPL 2+
Build system: r
Synopsis: package for nonlinear dimension reduction with Isomap and LLE.
Description:

This package provides a package for nonlinear dimension reduction using the Isomap and LLE algorithm. It also includes a routine for computing the Davis-Bouldin-Index for cluster validation, a plotting tool and a data generator for microarray gene expression data and for the Swiss Roll dataset.

r-redisparam 1.12.1
Dependencies: hiredis@1.1.0
Propagated dependencies: r-withr@3.0.2 r-redux@1.1.5 r-logger@0.4.1 r-biocparallel@1.44.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RedisParam
Licenses: Artistic License 2.0
Build system: r
Synopsis: Provide a 'redis' back-end for BiocParallel
Description:

This package provides a Redis-based back-end for BiocParallel, enabling an alternative mechanism for distributed computation. The The manager distributes tasks to a worker pool through a central Redis server, rather than directly to workers as with other BiocParallel implementations. This means that the worker pool can change dynamically during job evaluation. All features of BiocParallel are supported, including reproducible random number streams, logging to the manager, and alternative load balancing task distributions.

r-rmelting 1.26.0
Dependencies: openjdk@25
Propagated dependencies: r-rjava@1.0-11 r-rdpack@2.6.4
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/aravind-j/rmelting
Licenses: GPL 2 GPL 3
Build system: r
Synopsis: R Interface to MELTING 5
Description:

R interface to the MELTING 5 program (https://www.ebi.ac.uk/biomodels/tools/melting/) to compute melting temperatures of nucleic acid duplexes along with other thermodynamic parameters.

r-rcaspar 1.56.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RCASPAR
Licenses: GPL 3+
Build system: r
Synopsis: package for survival time prediction based on a piecewise baseline hazard Cox regression model.
Description:

The package is the R-version of the C-based software \boldCASPAR (Kaderali,2006: \urlhttp://bioinformatics.oxfordjournals.org/content/22/12/1495). It is meant to help predict survival times in the presence of high-dimensional explanatory covariates. The model is a piecewise baseline hazard Cox regression model with an Lq-norm based prior that selects for the most important regression coefficients, and in turn the most relevant covariates for survival analysis. It was primarily tried on gene expression and aCGH data, but can be used on any other type of high-dimensional data and in disciplines other than biology and medicine.

r-rcyjs 2.32.0
Propagated dependencies: r-httpuv@1.6.16 r-graph@1.88.0 r-browserviz@2.32.0 r-biocgenerics@0.56.0 r-base64enc@0.1-3
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RCyjs
Licenses: Expat
Build system: r
Synopsis: Display and manipulate graphs in cytoscape.js
Description:

Interactive viewing and exploration of graphs, connecting R to Cytoscape.js, using websockets.

r-rprimer 1.14.0
Propagated dependencies: r-shinyfeedback@0.4.0 r-shinycssloaders@1.1.0 r-shiny@1.11.1 r-s4vectors@0.48.0 r-reshape2@1.4.5 r-patchwork@1.3.2 r-mathjaxr@1.8-0 r-iranges@2.44.0 r-ggplot2@4.0.1 r-dt@0.34.0 r-bslib@0.9.0 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/sofpn/rprimer
Licenses: GPL 3
Build system: r
Synopsis: Design Degenerate Oligos from a Multiple DNA Sequence Alignment
Description:

Functions, workflow, and a Shiny application for visualizing sequence conservation and designing degenerate primers, probes, and (RT)-(q/d)PCR assays from a multiple DNA sequence alignment. The results can be presented in data frame format and visualized as dashboard-like plots. For more information, please see the package vignette.

r-ribocrypt 1.16.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/m-swirski/RiboCrypt
Licenses: Expat
Build system: r
Synopsis: Interactive visualization in genomics
Description:

R Package for interactive visualization and browsing NGS data. It contains a browser for both transcript and genomic coordinate view. In addition a QC and general metaplots are included, among others differential translation plots and gene expression plots. The package is still under development.

r-rtrmui 1.48.0
Propagated dependencies: r-shiny@1.11.1 r-rtrm@1.48.0 r-org-mm-eg-db@3.22.0 r-org-hs-eg-db@3.22.0 r-motifdb@1.52.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/ddiez/rTRMui
Licenses: GPL 3
Build system: r
Synopsis: shiny user interface for rTRM
Description:

This package provides a web interface to compute transcriptional regulatory modules with rTRM.

r-rtcga-cnv 1.38.0
Propagated dependencies: r-rtcga@1.40.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RTCGA.CNV
Licenses: GPL 2
Build system: r
Synopsis: CNV (Copy-number variation) datasets from The Cancer Genome Atlas Project
Description:

Package provides CNV (based on Merge snp) datasets from The Cancer Genome Atlas Project for all cohorts types from http://gdac.broadinstitute.org/. Data format is explained here https://wiki.nci.nih.gov/display/TCGA/Retrieving +Data+Using+the+Data+Matrix. Data from 2015-11-01 snapshot.

r-rnamodr-ribomethseq 1.24.0
Propagated dependencies: r-s4vectors@0.48.0 r-rnamodr@1.24.0 r-iranges@2.44.0 r-gviz@1.54.0 r-genomicranges@1.62.0 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/FelixErnst/RNAmodR.RiboMethSeq
Licenses: Artistic License 2.0
Build system: r
Synopsis: Detection of 2'-O methylations by RiboMethSeq
Description:

RNAmodR.RiboMethSeq implements the detection of 2'-O methylations on RNA from experimental data generated with the RiboMethSeq protocol. The package builds on the core functionality of the RNAmodR package to detect specific patterns of the modifications in high throughput sequencing data.

r-rnaseqpower 1.50.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RNASeqPower
Licenses: FSDG-compatible
Build system: r
Synopsis: Sample size for RNAseq studies
Description:

RNA-seq, sample size.

r-rforproteomics 1.48.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: http://lgatto.github.com/RforProteomics/
Licenses: Artistic License 2.0
Build system: r
Synopsis: Companion package to the 'Using R and Bioconductor for proteomics data analysis' publication
Description:

This package contains code to illustrate the Using R and Bioconductor for proteomics data analysis and Visualisation of proteomics data using R and Bioconductor manuscripts. The vignettes describe the code and data needed to reproduce the examples and figures described in the paper and functionality for proteomics visualisation. It also contain various function to discover R software for mass spectrometry and proteomics.

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