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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.

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

This package provides a package containing an environment representing the Bovine.cdf file.

r-bridgedbr 2.20.0
Propagated dependencies: r-rjava@1.0-11 r-curl@7.0.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/bridgedb/BridgeDbR
Licenses: AGPL 3
Build system: r
Synopsis: Code for using BridgeDb identifier mapping framework from within R
Description:

Use BridgeDb functions and load identifier mapping databases in R. It uses GitHub, Zenodo, and Figshare if you use this package to download identifier mappings files.

r-blacksheepr 1.24.0
Propagated dependencies: r-viridis@0.6.5 r-summarizedexperiment@1.40.0 r-rcolorbrewer@1.1-3 r-pasilla@1.38.0 r-complexheatmap@2.26.0 r-circlize@0.4.16
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/blacksheepr
Licenses: Expat
Build system: r
Synopsis: Outlier Analysis for pairwise differential comparison
Description:

Blacksheep is a tool designed for outlier analysis in the context of pairwise comparisons in an effort to find distinguishing characteristics from two groups. This tool was designed to be applied for biological applications such as phosphoproteomics or transcriptomics, but it can be used for any data that can be represented by a 2D table, and has two sub populations within the table to compare.

r-biseq 1.50.0
Propagated dependencies: r-summarizedexperiment@1.40.0 r-seqinfo@1.0.0 r-s4vectors@0.48.0 r-rtracklayer@1.70.0 r-lokern@1.1-12 r-iranges@2.44.0 r-globaltest@5.64.0 r-genomicranges@1.62.0 r-formula@1.2-5 r-biocgenerics@0.56.0 r-biobase@2.70.0 r-betareg@3.2-4
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BiSeq
Licenses: LGPL 3
Build system: r
Synopsis: Processing and analyzing bisulfite sequencing data
Description:

The BiSeq package provides useful classes and functions to handle and analyze targeted bisulfite sequencing (BS) data such as reduced-representation bisulfite sequencing (RRBS) data. In particular, it implements an algorithm to detect differentially methylated regions (DMRs). The package takes already aligned BS data from one or multiple samples.

r-beat 1.48.0
Propagated dependencies: r-shortread@1.68.0 r-genomicranges@1.62.0 r-bsgenome@1.78.0 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BEAT
Licenses: FSDG-compatible
Build system: r
Synopsis: BEAT - BS-Seq Epimutation Analysis Toolkit
Description:

Model-based analysis of single-cell methylation data.

r-biocartaimage 1.8.1
Propagated dependencies: r-magick@2.9.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/jokergoo/BioCartaImage
Licenses: Expat
Build system: r
Synopsis: BioCarta Pathway Images
Description:

The core functionality of the package is to provide coordinates of genes on the BioCarta pathway images and to provide methods to add self-defined graphics to the genes of interest.

r-breastcancerupp 1.48.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: http://compbio.dfci.harvard.edu/
Licenses: Artistic License 2.0
Build system: r
Synopsis: Gene expression dataset published by Miller et al. [2005] (UPP)
Description:

Gene expression data from a breast cancer study published by Miller et al. in 2005, provided as an eSet.

r-bugsigdbr 1.16.2
Propagated dependencies: r-vroom@1.6.6 r-biocfilecache@3.0.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/waldronlab/bugsigdbr
Licenses: GPL 3
Build system: r
Synopsis: R-side access to published microbial signatures from BugSigDB
Description:

The bugsigdbr package implements convenient access to bugsigdb.org from within R/Bioconductor. The goal of the package is to facilitate import of BugSigDB data into R/Bioconductor, provide utilities for extracting microbe signatures, and enable export of the extracted signatures to plain text files in standard file formats such as GMT.

r-bsgenome-ptroglodytes-ucsc-pantro2 1.4.0
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Ptroglodytes.UCSC.panTro2
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Pan troglodytes (UCSC version panTro2)
Description:

Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro2, Mar. 2006) and stored in Biostrings objects.

r-bsgenome-ggallus-ucsc-galgal4 1.4.0
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Ggallus.UCSC.galGal4
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Gallus gallus (UCSC version galGal4)
Description:

Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal4, Nov. 2011) and stored in Biostrings objects.

r-bsgenome-rnorvegicus-ucsc-rn4-masked 1.3.99
Propagated dependencies: r-bsgenome-rnorvegicus-ucsc-rn4@1.4.0 r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Rnorvegicus.UCSC.rn4.masked
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full masked genome sequences for Rattus norvegicus (UCSC version rn4)
Description:

Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn4, Nov. 2004) and stored in Biostrings objects. The sequences are the same as in BSgenome.Rnorvegicus.UCSC.rn4, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are "active" by default.

r-biocfhir 1.12.0
Propagated dependencies: r-visnetwork@2.1.4 r-tidyr@1.3.1 r-shiny@1.11.1 r-jsonlite@2.0.0 r-graph@1.88.0 r-dt@0.34.0 r-dplyr@1.1.4 r-biocbaseutils@1.12.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/vjcitn/BiocFHIR
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illustration of FHIR ingestion and transformation using R
Description:

FHIR R4 bundles in JSON format are derived from https://synthea.mitre.org/downloads. Transformation inspired by a kaggle notebook published by Dr Alexander Scarlat, https://www.kaggle.com/code/drscarlat/fhir-starter-parse-healthcare-bundles-into-tables. This is a very limited illustration of some basic parsing and reorganization processes. Additional tooling will be required to move beyond the Synthea data illustrations.

r-bsgenome-drerio-ucsc-danrer6 1.4.0
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Drerio.UCSC.danRer6
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Danio rerio (UCSC version danRer6)
Description:

Full genome sequences for Danio rerio (Zebrafish) as provided by UCSC (danRer6, Dec. 2008) and stored in Biostrings objects.

r-bsgenome-amellifera-ncbi-amelhav3-1 1.5.0
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Amellifera.NCBI.AmelHAv3.1
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Apis mellifera (Amel_HAv3.1)
Description:

Full genome sequences for Apis mellifera as provided by NCBI (assembly Amel_HAv3.1, assembly accession GCF_003254395.2) and stored in Biostrings objects.

r-bsgenome-ptroglodytes-ucsc-pantro3 1.4.0
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Ptroglodytes.UCSC.panTro3
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Pan troglodytes (UCSC version panTro3)
Description:

Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro3, Oct. 2010) and stored in Biostrings objects.

r-bugphyzz 1.4.0
Propagated dependencies: r-tidyselect@1.2.1 r-tidyr@1.3.1 r-stringr@1.6.0 r-s4vectors@0.48.0 r-purrr@1.2.0 r-httr2@1.2.1 r-dplyr@1.1.4 r-biocfilecache@3.0.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/waldronlab/bugphyzz
Licenses: Artistic License 2.0
Build system: r
Synopsis: harmonized data resource and software for enrichment analysis of microbial physiologies
Description:

bugphyzz is an electronic database of standardized microbial annotations. It facilitates the creation of microbial signatures based on shared attributes, which are utilized for bug set enrichment analysis. The data also includes annotations imputed with ancestra state reconstruction methods.

r-bg2 1.10.0
Propagated dependencies: r-memoise@2.0.1 r-matrix@1.7-4 r-mass@7.3-65 r-ga@3.2.4 r-caret@7.0-1
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BG2
Licenses: FSDG-compatible
Build system: r
Synopsis: Performs Bayesian GWAS analysis for non-Gaussian data using BG2
Description:

This package is built to perform GWAS analysis for non-Gaussian data using BG2. The BG2 method uses penalized quasi-likelihood along with nonlocal priors in a two step manner to identify SNPs in GWAS analysis. The research related to this package was supported in part by National Science Foundation awards DMS 1853549 and DMS 2054173.

r-blma 1.34.0
Propagated dependencies: r-rontotools@2.38.0 r-padog@1.52.0 r-metafor@4.8-0 r-limma@3.66.0 r-gsa@1.03.3 r-graph@1.88.0 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BLMA
Licenses: FSDG-compatible
Build system: r
Synopsis: BLMA: A package for bi-level meta-analysis
Description:

Suit of tools for bi-level meta-analysis. The package can be used in a wide range of applications, including general hypothesis testings, differential expression analysis, functional analysis, and pathway analysis.

r-bsgenome-gaculeatus-ucsc-gasacu1-masked 1.3.99
Propagated dependencies: r-bsgenome-gaculeatus-ucsc-gasacu1@1.4.0 r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Gaculeatus.UCSC.gasAcu1.masked
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full masked genome sequences for Gasterosteus aculeatus (UCSC version gasAcu1)
Description:

Full genome sequences for Gasterosteus aculeatus (Stickleback) as provided by UCSC (gasAcu1, Feb. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Gaculeatus.UCSC.gasAcu1, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are "active" by default.

r-bsgenome-ggallus-ucsc-galgal5 1.4.2
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Ggallus.UCSC.galGal5
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Gallus gallus (UCSC version galGal5)
Description:

Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal5, Dec. 2015) and stored in Biostrings objects.

r-bsgenome-ggallus-ucsc-galgal6 1.4.2
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Ggallus.UCSC.galGal6
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Gallus gallus (UCSC version galGal6)
Description:

Full genome sequences for Gallus gallus (Chicken) as provided by UCSC (galGal6, Mar. 2018) and stored in Biostrings objects.

r-bsgenome-mdomestica-ucsc-mondom5 1.4.2
Propagated dependencies: r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BSgenome.Mdomestica.UCSC.monDom5
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Monodelphis domestica (UCSC version monDom5)
Description:

Full genome sequences for Monodelphis domestica (Opossum) as provided by UCSC (monDom5, Oct. 2006) and stored in Biostrings objects.

r-bioplex 1.16.1
Propagated dependencies: r-summarizedexperiment@1.40.0 r-graph@1.88.0 r-geoquery@2.78.0 r-biocfilecache@3.0.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/ccb-hms/BioPlex
Licenses: Artistic License 2.0
Build system: r
Synopsis: R-side access to BioPlex protein-protein interaction data
Description:

The BioPlex package implements access to the BioPlex protein-protein interaction networks and related resources from within R. Besides protein-protein interaction networks for HEK293 and HCT116 cells, this includes access to CORUM protein complex data, and transcriptome and proteome data for the two cell lines. Functionality focuses on importing the various data resources and storing them in dedicated Bioconductor data structures, as a foundation for integrative downstream analysis of the data.

r-barley1cdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/barley1cdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: barley1cdf
Description:

This package provides a package containing an environment representing the Barley1.CDF file.

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