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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.

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r-bsgenome-cfamiliaris-ucsc-canfam2 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.Cfamiliaris.UCSC.canFam2
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Canis lupus familiaris (UCSC version canFam2)
Description:

Full genome sequences for Canis lupus familiaris (Dog) as provided by UCSC (canFam2, May 2005) 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-beer 1.14.1
Dependencies: jags@4.3.1
Propagated dependencies: r-summarizedexperiment@1.40.0 r-rjags@4-17 r-progressr@0.18.0 r-phipdata@1.18.0 r-edger@4.8.0 r-cli@3.6.5 r-biocparallel@1.44.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/athchen/beer/
Licenses: Expat
Build system: r
Synopsis: Bayesian Enrichment Estimation in R
Description:

BEER implements a Bayesian model for analyzing phage-immunoprecipitation sequencing (PhIP-seq) data. Given a PhIPData object, BEER returns posterior probabilities of enriched antibody responses, point estimates for the relative fold-change in comparison to negative control samples, and more. Additionally, BEER provides a convenient implementation for using edgeR to identify enriched antibody responses.

r-beadsorted-saliva-epic 1.18.0
Propagated dependencies: r-minfi@1.56.0 r-experimenthub@3.0.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BeadSorted.Saliva.EPIC
Licenses: GPL 3
Build system: r
Synopsis: Illumina EPIC data on BeadSorted child saliva cells
Description:

Raw data objects used to estimate saliva cell proportion estimates in ewastools. The FlowSorted.Saliva.EPIC object is constructed from samples assayed by Lauren Middleton et. al. (2021).

r-bsgenome-mfascicularis-ncbi-6-0 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.Mfascicularis.NCBI.6.0
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Macaca fascicularis (Macaca_fascicularis_6.0)
Description:

Full genome sequences for Macaca fascicularis (Crab-eating macaque) as provided by NCBI (assembly Macaca_fascicularis_6.0, assembly accession GCA_011100615.1) and stored in Biostrings objects.

r-bsgenome-ptroglodytes-ucsc-pantro6 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.Ptroglodytes.UCSC.panTro6
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Pan troglodytes (UCSC version panTro6)
Description:

Full genome sequences for Pan troglodytes (Chimp) as provided by UCSC (panTro6, Jan. 2018) and stored in Biostrings objects.

r-bsgenome-hsapiens-ncbi-t2t-chm13v2-0 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.Hsapiens.NCBI.T2T.CHM13v2.0
Licenses: Artistic License 2.0
Build system: r
Synopsis: T2T-CHM13v2.0 assembly (Homo sapiens) wrapped in a BSgenome object
Description:

The T2T-CHM13v2.0 assembly (accession GCA_009914755.4), as submitted to NCBI by the T2T Consortium, and wrapped in a BSgenome object. Companion paper: "The complete sequence of a human genome" by Nurk S, Koren S, Rhie A, Rautiainen M, et al. Science, 2022.

r-bsgenome-scerevisiae-ucsc-saccer3 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.Scerevisiae.UCSC.sacCer3
Licenses: Artistic License 2.0
Build system: r
Synopsis: Saccharomyces cerevisiae (Yeast) full genome (UCSC version sacCer3)
Description:

Saccharomyces cerevisiae (Yeast) full genome as provided by UCSC (sacCer3, April 2011) and stored in Biostrings objects.

r-bsgenome-hsapiens-ucsc-hg18 1.3.1000
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.Hsapiens.UCSC.hg18
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Homo sapiens (UCSC version hg18)
Description:

Full genome sequences for Homo sapiens (Human) as provided by UCSC (hg18, Mar. 2006) 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-bsgenome-dvirilis-ensembl-dvircaf1 1.4.3
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.Dvirilis.Ensembl.dvircaf1
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Drosophila virilis (assembly dvir_caf1)
Description:

Full genome sequences for Drosophila virilis (assembly dvir_caf1, GenBank assembly accession GCA_000005245.1) as provided by Ensembl and stored in Biostrings objects.

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-bert 1.6.0
Propagated dependencies: r-sva@3.58.0 r-summarizedexperiment@1.40.0 r-logging@0.10-108 r-limma@3.66.0 r-janitor@2.2.1 r-iterators@1.0.14 r-invgamma@1.2 r-foreach@1.5.2 r-comprehenr@0.6.10 r-cluster@2.1.8.1 r-biocparallel@1.44.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/HSU-HPC/BERT/
Licenses: GPL 3
Build system: r
Synopsis: High Performance Data Integration for Large-Scale Analyses of Incomplete Omic Profiles Using Batch-Effect Reduction Trees (BERT)
Description:

This package provides efficient batch-effect adjustment of data with missing values. BERT orders all batch effect correction to a tree of pairwise computations. BERT allows parallelization over sub-trees.

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-beadarrayusecases 1.47.0
Propagated dependencies: r-limma@3.66.0 r-geoquery@2.78.0 r-beadarray@2.58.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BeadArrayUseCases
Licenses: GPL 2
Build system: r
Synopsis: Analysing Illumina BeadArray expression data using Bioconductor
Description:

Example data files and use cases for processing Illumina BeadArray expression data using Bioconductor.

r-bsgenome-tguttata-ucsc-taegut1 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.Tguttata.UCSC.taeGut1
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full genome sequences for Taeniopygia guttata (UCSC version taeGut1)
Description:

Full genome sequences for Taeniopygia guttata (Zebra finch) as provided by UCSC (taeGut1, Jul. 2008) and stored in Biostrings objects.

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

Affymetrix Affymetrix Bovine Array annotation data (chip bovine) assembled using data from public repositories.

r-bsgenome-mmulatta-ucsc-rhemac2-masked 1.3.99
Propagated dependencies: r-bsgenome-mmulatta-ucsc-rhemac2@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.Mmulatta.UCSC.rheMac2.masked
Licenses: Artistic License 2.0
Build system: r
Synopsis: Full masked genome sequences for Macaca mulatta (UCSC version rheMac2)
Description:

Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac2, Jan. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmulatta.UCSC.rheMac2, 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. NOTE: In most assemblies available at UCSC, Tandem Repeats Finder repeats were filtered to retain only the repeats with period <= 12. However, the filtering was omitted for this assembly, so the TRF masks contain all Tandem Repeats Finder results.

r-cottonprobe 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/c.scm (guix-bioc packages c)
Home page: https://bioconductor.org/packages/cottonprobe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type cotton
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 Cotton\_probe\_tab.

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

Affymetrix clariomdhuman annotation data (chip clariomdhumantranscriptcluster) assembled using data from public repositories.

r-codex 1.42.0
Propagated dependencies: r-s4vectors@0.48.0 r-rsamtools@2.26.0 r-iranges@2.44.0 r-genomeinfodb@1.46.0 r-bsgenome-hsapiens-ucsc-hg19@1.4.3 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/c.scm (guix-bioc packages c)
Home page: https://bioconductor.org/packages/CODEX
Licenses: GPL 2
Build system: r
Synopsis: Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing
Description:

This package provides a normalization and copy number variation calling procedure for whole exome DNA sequencing data. CODEX relies on the availability of multiple samples processed using the same sequencing pipeline for normalization, and does not require matched controls. The normalization model in CODEX includes terms that specifically remove biases due to GC content, exon length and targeting and amplification efficiency, and latent systemic artifacts. CODEX also includes a Poisson likelihood-based recursive segmentation procedure that explicitly models the count-based exome sequencing data.

r-comethdmr 1.14.0
Propagated dependencies: r-lmertest@3.1-3 r-iranges@2.44.0 r-genomicranges@1.62.0 r-experimenthub@3.0.0 r-bumphunter@1.52.0 r-biocparallel@1.44.0 r-annotationhub@4.0.0
Channel: guix-bioc
Location: guix-bioc/packages/c.scm (guix-bioc packages c)
Home page: https://github.com/TransBioInfoLab/coMethDMR
Licenses: GPL 3
Build system: r
Synopsis: Accurate identification of co-methylated and differentially methylated regions in epigenome-wide association studies
Description:

coMethDMR identifies genomic regions associated with continuous phenotypes by optimally leverages covariations among CpGs within predefined genomic regions. Instead of testing all CpGs within a genomic region, coMethDMR carries out an additional step that selects co-methylated sub-regions first without using any outcome information. Next, coMethDMR tests association between methylation within the sub-region and continuous phenotype using a random coefficient mixed effects model, which models both variations between CpG sites within the region and differential methylation simultaneously.

r-cmap 1.15.1
Channel: guix-bioc
Location: guix-bioc/packages/c.scm (guix-bioc packages c)
Home page: https://bioconductor.org/packages/cMAP
Licenses: LGPL 2.0+
Build system: r
Synopsis: data package containing annotation data for cMAP
Description:

Annotation data file for cMAP assembled using data from public data repositories.

Total results: 2911