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      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
     / /_ \ \   / / /\ \ \\ \___/ /     / / /\ \___\
    / / /\ \ \ / / /  \ \_\\ \ \_/      \ \ \ \/___/
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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-rat2302-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/rat2302.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix Rat230_2 Array annotation data (chip rat2302)
Description:

Affymetrix Affymetrix Rat230_2 Array annotation data (chip rat2302) assembled using data from public repositories.

r-rcollectl 1.10.0
Dependencies: collectl@4.3.1
Propagated dependencies: r-processx@3.8.6 r-lubridate@1.9.4 r-ggplot2@4.0.1
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/vjcitn/Rcollectl
Licenses: Artistic License 2.0
Build system: r
Synopsis: Help use collectl with R in Linux, to measure resource consumption in R processes
Description:

Provide functions to obtain instrumentation data on processes in a unix environment. Parse output of a collectl run. Vizualize aspects of system usage over time, with annotation.

r-rgu34cprobe 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/rgu34cprobe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type rgu34c
Description:

This package was automatically created by package AnnotationForge version 1.11.21. The probe sequence data was obtained from http://www.affymetrix.com. The file name was RG-U34C\_probe\_tab.

r-rfarm 1.22.0
Propagated dependencies: r-xml2@1.5.0 r-stringi@1.8.7 r-s4vectors@0.48.0 r-rvest@1.0.5 r-rsvg@2.7.0 r-magick@2.9.0 r-jsonlite@2.0.0 r-iranges@2.44.0 r-httr@1.4.7 r-data-table@1.17.8 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/rfaRm
Licenses: GPL 3
Build system: r
Synopsis: An R interface to the Rfam database
Description:

rfaRm provides a client interface to the Rfam database of RNA families. Data that can be retrieved include RNA families, secondary structure images, covariance models, sequences within each family, alignments leading to the identification of a family and secondary structures in the dot-bracket format.

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-rae230bcdf 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/rae230bcdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: rae230bcdf
Description:

This package provides a package containing an environment representing the RAE230B.CDF file.

r-rtcga-mutations 20151101.40.0
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.mutations
Licenses: GPL 2
Build system: r
Synopsis: Mutations datasets from The Cancer Genome Atlas Project
Description:

Package provides mutations datasets from The Cancer Genome Atlas Project for all cohorts types from http://gdac.broadinstitute.org/. Mutations data format is explained here https://wiki.nci.nih.gov/display/TCGA/Mutation+Annotation+Format+(MAF)+Specification. There is extra one column with patients barcodes. Data from 2015-11-01 snapshot.

r-recount3 1.20.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/LieberInstitute/recount3
Licenses: Artistic License 2.0
Build system: r
Synopsis: Explore and download data from the recount3 project
Description:

The recount3 package enables access to a large amount of uniformly processed RNA-seq data from human and mouse. You can download RangedSummarizedExperiment objects at the gene, exon or exon-exon junctions level with sample metadata and QC statistics. In addition we provide access to sample coverage BigWig files.

r-regionereloaded 1.12.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/RMalinverni/regioneReload
Licenses: Artistic License 2.0
Build system: r
Synopsis: RegioneReloaded: Multiple Association for Genomic Region Sets
Description:

RegioneReloaded is a package that allows simultaneous analysis of associations between genomic region sets, enabling clustering of data and the creation of ready-to-publish graphs. It takes over and expands on all the features of its predecessor regioneR. It also incorporates a strategy to improve p-value calculations and normalize z-scores coming from multiple analysis to allow for their direct comparison. RegioneReloaded builds upon regioneR by adding new plotting functions for obtaining publication-ready graphs.

r-rseqan 1.30.0
Propagated dependencies: r-rcpp@1.1.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RSeqAn
Licenses: Modified BSD
Build system: r
Synopsis: R SeqAn
Description:

Headers and some wrapper functions from the SeqAn C++ library for ease of usage in R.

r-rmir-hsa 1.0.5
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/RmiR.hsa
Licenses: FSDG-compatible
Build system: r
Synopsis: Various databases of microRNA Targets
Description:

Various databases of microRNA Targets.

r-rhesusprobe 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/rhesusprobe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type rhesus
Description:

This package was automatically created by package AnnotationForge version 1.11.21. The probe sequence data was obtained from http://www.affymetrix.com. The file name was Rhesus\_probe\_tab.

r-randrotation 1.22.0
Propagated dependencies: r-rdpack@2.6.4
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/phettegger/randRotation
Licenses: GPL 3
Build system: r
Synopsis: Random Rotation Methods for High Dimensional Data with Batch Structure
Description:

This package provides a collection of methods for performing random rotations on high-dimensional, normally distributed data (e.g. microarray or RNA-seq data) with batch structure. The random rotation approach allows exact testing of dependent test statistics with linear models following arbitrary batch effect correction methods.

r-resolve 1.12.0
Propagated dependencies: r-survival@3.8-3 r-s4vectors@0.48.0 r-rhpcblasctl@0.23-42 r-reshape2@1.4.5 r-nnls@1.6 r-mutationalpatterns@3.19.1 r-lsa@0.73.3 r-iranges@2.44.0 r-gridextra@2.3 r-glmnet@4.1-10 r-ggplot2@4.0.1 r-genomicranges@1.62.0 r-genomeinfodb@1.46.0 r-data-table@1.17.8 r-cluster@2.1.8.1 r-bsgenome-hsapiens-1000genomes-hs37d5@0.99.1 r-bsgenome@1.78.0 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/danro9685/RESOLVE
Licenses: FSDG-compatible
Build system: r
Synopsis: RESOLVE: An R package for the efficient analysis of mutational signatures from cancer genomes
Description:

Cancer is a genetic disease caused by somatic mutations in genes controlling key biological functions such as cellular growth and division. Such mutations may arise both through cell-intrinsic and exogenous processes, generating characteristic mutational patterns over the genome named mutational signatures. The study of mutational signatures have become a standard component of modern genomics studies, since it can reveal which (environmental and endogenous) mutagenic processes are active in a tumor, and may highlight markers for therapeutic response. Mutational signatures computational analysis presents many pitfalls. First, the task of determining the number of signatures is very complex and depends on heuristics. Second, several signatures have no clear etiology, casting doubt on them being computational artifacts rather than due to mutagenic processes. Last, approaches for signatures assignment are greatly influenced by the set of signatures used for the analysis. To overcome these limitations, we developed RESOLVE (Robust EStimation Of mutationaL signatures Via rEgularization), a framework that allows the efficient extraction and assignment of mutational signatures. RESOLVE implements a novel algorithm that enables (i) the efficient extraction, (ii) exposure estimation, and (iii) confidence assessment during the computational inference of mutational signatures.

r-ragene20sttranscriptcluster-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/ragene20sttranscriptcluster.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix ragene20 annotation data (chip ragene20sttranscriptcluster)
Description:

Affymetrix ragene20 annotation data (chip ragene20sttranscriptcluster) assembled using data from public repositories.

r-rnu34cdf 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/rnu34cdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: rnu34cdf
Description:

This package provides a package containing an environment representing the RN_U34.CDF file.

r-rtn 2.34.1
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: http://dx.doi.org/10.1038/ncomms3464
Licenses: Artistic License 2.0
Build system: r
Synopsis: RTN: Reconstruction of Transcriptional regulatory Networks and analysis of regulons
Description:

This package provides a transcriptional regulatory network (TRN) consists of a collection of transcription factors (TFs) and the regulated target genes. TFs are regulators that recognize specific DNA sequences and guide the expression of the genome, either activating or repressing the expression the target genes. The set of genes controlled by the same TF forms a regulon. This package provides classes and methods for the reconstruction of TRNs and analysis of regulons.

r-rtcga-pancan12 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.PANCAN12
Licenses: GPL 2
Build system: r
Synopsis: PanCan 12 from Genome Cancer Browser
Description:

Package provides clinical, expression, cnv and mutation data from Genome Cancer Browser.

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.

r-reusedata 1.10.0
Propagated dependencies: r-yaml@2.3.10 r-s4vectors@0.48.0 r-rcwlpipelines@1.26.0 r-rcwl@1.26.0 r-jsonlite@2.0.0 r-biocfilecache@3.0.0 r-basilisk@1.22.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/rworkflow/ReUseData
Licenses: GPL 3
Build system: r
Synopsis: Reusable and reproducible Data Management
Description:

ReUseData is an _R/Bioconductor_ software tool to provide a systematic and versatile approach for standardized and reproducible data management. ReUseData facilitates transformation of shell or other ad hoc scripts for data preprocessing into workflow-based data recipes. Evaluation of data recipes generate curated data files in their generic formats (e.g., VCF, bed). Both recipes and data are cached using database infrastructure for easy data management and reuse. Prebuilt data recipes are available through ReUseData portal ("https://rcwl.org/dataRecipes/") with full annotation and user instructions. Pregenerated data are available through ReUseData cloud bucket that is directly downloadable through "getCloudData()".

r-rnamodr 1.24.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/FelixErnst/RNAmodR
Licenses: Artistic License 2.0
Build system: r
Synopsis: Detection of post-transcriptional modifications in high throughput sequencing data
Description:

RNAmodR provides classes and workflows for loading/aggregation data from high througput sequencing aimed at detecting post-transcriptional modifications through analysis of specific patterns. In addition, utilities are provided to validate and visualize the results. The RNAmodR package provides a core functionality from which specific analysis strategies can be easily implemented as a seperate package.

r-rat2302frmavecs 0.99.11
Propagated dependencies: r-frma@1.62.0 r-affy@1.88.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/rat2302frmavecs
Licenses: GPL 2+
Build system: r
Synopsis: Vectors used by frma for microarrays of type rat2302rnentrezg
Description:

This package was created with the help of frmaTools version 1.24.0.

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-rimmport 1.38.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: http://bioconductor.org/packages/RImmPort/
Licenses: GPL 3
Build system: r
Synopsis: RImmPort: Enabling Ready-for-analysis Immunology Research Data
Description:

The RImmPort package simplifies access to ImmPort data for analysis in the R environment. It provides a standards-based interface to the ImmPort study data that is in a proprietary format.

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Total results: 69112