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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-bnem 1.18.0
Propagated dependencies: r-vsn@3.78.0 r-sva@3.58.0 r-snowfall@1.84-6.3 r-rmarkdown@2.30 r-rgraphviz@2.54.0 r-rcolorbrewer@1.1-3 r-mnem@1.26.0 r-matrixstats@1.5.0 r-limma@3.66.0 r-graph@1.88.0 r-flexclust@1.5.0 r-epinem@1.34.0 r-cluster@2.1.8.1 r-cellnoptr@1.56.0 r-biobase@2.70.0 r-binom@1.1-1.1 r-affy@1.88.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/MartinFXP/bnem/
Licenses: GPL 3
Synopsis: Training of logical models from indirect measurements of perturbation experiments
Description:

bnem combines the use of indirect measurements of Nested Effects Models (package mnem) with the Boolean networks of CellNOptR. Perturbation experiments of signalling nodes in cells are analysed for their effect on the global gene expression profile. Those profiles give evidence for the Boolean regulation of down-stream nodes in the network, e.g., whether two parents activate their child independently (OR-gate) or jointly (AND-gate).

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
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-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
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-breastcancermainz 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
Synopsis: Gene expression dataset published by Schmidt et al. [2008] (MAINZ)
Description:

Gene expression data from the breast cancer study published by Schmidt et al. in 2008, provided as an eSet.

r-buscorrect 1.28.0
Propagated dependencies: r-summarizedexperiment@1.40.0 r-gplots@3.2.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://bioconductor.org/packages/BUScorrect
Licenses: GPL 2+
Synopsis: Batch Effects Correction with Unknown Subtypes
Description:

High-throughput experimental data are accumulating exponentially in public databases. However, mining valid scientific discoveries from these abundant resources is hampered by technical artifacts and inherent biological heterogeneity. The former are usually termed "batch effects," and the latter is often modelled by "subtypes." The R package BUScorrect fits a Bayesian hierarchical model, the Batch-effects-correction-with-Unknown-Subtypes model (BUS), to correct batch effects in the presence of unknown subtypes. BUS is capable of (a) correcting batch effects explicitly, (b) grouping samples that share similar characteristics into subtypes, (c) identifying features that distinguish subtypes, and (d) enjoying a linear-order computation complexity.

r-bsgenome-cfamiliaris-ucsc-canfam3-masked 1.3.99
Propagated dependencies: r-bsgenome-cfamiliaris-ucsc-canfam3@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.Cfamiliaris.UCSC.canFam3.masked
Licenses: Artistic License 2.0
Synopsis: Full masked genome sequences for Canis lupus familiaris (UCSC version canFam3)
Description:

Full genome sequences for Canis lupus familiaris (Dog) as provided by UCSC (canFam3, Sep. 2011) and stored in Biostrings objects. The sequences are the same as in BSgenome.Cfamiliaris.UCSC.canFam3, 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-mmulatta-ucsc-rhemac8 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.Mmulatta.UCSC.rheMac8
Licenses: Artistic License 2.0
Synopsis: Full genome sequences for Macaca mulatta (UCSC version rheMac8)
Description:

Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac8, Nov. 2015) and stored in Biostrings objects.

r-bsgenome-btaurus-ucsc-bostau3 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.Btaurus.UCSC.bosTau3
Licenses: Artistic License 2.0
Synopsis: Full genome sequences for Bos taurus (UCSC version bosTau3)
Description:

Full genome sequences for Bos taurus (Cow) as provided by UCSC (bosTau3, Aug. 2006) and stored in Biostrings objects.

r-bsgenome-amellifera-ucsc-apimel2-masked 1.3.99
Propagated dependencies: r-bsgenome-amellifera-ucsc-apimel2@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.Amellifera.UCSC.apiMel2.masked
Licenses: Artistic License 2.0
Synopsis: Full masked genome sequences for Apis mellifera (UCSC version apiMel2)
Description:

Full genome sequences for Apis mellifera (Honey Bee) as provided by UCSC (apiMel2, Jan. 2005) and stored in Biostrings objects. The sequences are the same as in BSgenome.Amellifera.UCSC.apiMel2, except that each of them has the 3 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), and (3) the mask of repeats from RepeatMasker (RM mask). Only the AGAPS and AMB masks are "active" by default.

r-bsgenome-btaurus-ucsc-bostau9-masked 1.4.4
Propagated dependencies: r-bsgenome-btaurus-ucsc-bostau9@1.4.2 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.Btaurus.UCSC.bosTau9.masked
Licenses: Artistic License 2.0
Synopsis: Full masked genome sequences for Bos taurus (UCSC version bosTau9)
Description:

Full genome sequences for Bos taurus (Cow) as provided by UCSC (genome bosTau9) and stored in Biostrings objects. The sequences are the same as in BSgenome.Btaurus.UCSC.bosTau9, 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-tgondii-toxodb-7-0 0.99.1
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.Tgondii.ToxoDB.7.0
Licenses: FSDG-compatible
Synopsis: Toxoplasma gondii ME49 (ToxoDB-7.0)
Description:

Toxoplasma gondii ME49 genome Release 7.0 available at http://www.toxodb.org.

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
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-bnbc 1.32.0
Propagated dependencies: r-sva@3.58.0 r-summarizedexperiment@1.40.0 r-seqinfo@1.0.0 r-s4vectors@0.48.0 r-rhdf5@2.54.0 r-rcpp@1.1.0 r-preprocesscore@1.72.0 r-matrixstats@1.5.0 r-iranges@2.44.0 r-hicbricks@1.28.0 r-genomicranges@1.62.0 r-ebimage@4.52.0 r-data-table@1.17.8 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/b.scm (guix-bioc packages b)
Home page: https://github.com/hansenlab/bnbc
Licenses: Artistic License 2.0
Synopsis: Bandwise normalization and batch correction of Hi-C data
Description:

This package provides tools to normalize (several) Hi-C data from replicates.

r-bsgenome-hsapiens-ucsc-hg17-masked 1.3.999
Propagated dependencies: r-bsgenome-hsapiens-ucsc-hg17@1.3.1001 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.hg17.masked
Licenses: Artistic License 2.0
Synopsis: Full masked genome sequences for Homo sapiens (UCSC version hg17)
Description:

Full genome sequences for Homo sapiens (Human) as provided by UCSC (hg17, May 2004) and stored in Biostrings objects. The sequences are the same as in BSgenome.Hsapiens.UCSC.hg17, 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-amellifera-ucsc-apimel2 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.Amellifera.UCSC.apiMel2
Licenses: Artistic License 2.0
Synopsis: Full genome sequences for Apis mellifera (UCSC version apiMel2)
Description:

Full genome sequences for Apis mellifera (Honey Bee) as provided by UCSC (apiMel2, Jan. 2005) and stored in Biostrings objects.

r-bsgenome-rnorvegicus-ucsc-rn6 1.4.1
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.Rnorvegicus.UCSC.rn6
Licenses: Artistic License 2.0
Synopsis: Full genome sequences for Rattus norvegicus (UCSC version rn6)
Description:

Full genome sequences for Rattus norvegicus (Rat) as provided by UCSC (rn6, Jul. 2014) and stored in Biostrings objects.

r-bsgenome-btaurus-ucsc-bostau4-masked 1.3.99
Propagated dependencies: r-bsgenome-btaurus-ucsc-bostau4@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.Btaurus.UCSC.bosTau4.masked
Licenses: Artistic License 2.0
Synopsis: Full masked genome sequences for Bos taurus (UCSC version bosTau4)
Description:

Full genome sequences for Bos taurus (Cow) as provided by UCSC (bosTau4, Oct. 2007) and stored in Biostrings objects. The sequences are the same as in BSgenome.Btaurus.UCSC.bosTau4, 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-amellifera-beebase-assembly4 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.Amellifera.BeeBase.assembly4
Licenses: Artistic License 2.0
Synopsis: Full genome sequences for Apis mellifera (BeeBase assembly4)
Description:

iFull genome sequences for Apis mellifera (Honey Bee) as provided by BeeBase (assembly4, Feb. 2008) and stored in Biostrings objects.

r-barley1probe 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/barley1probe
Licenses: LGPL 2.0+
Synopsis: Probe sequence data for microarrays of type barley1
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 Barley1\_probe\_tab.

r-bsgenome-mmulatta-ucsc-rhemac10 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.Mmulatta.UCSC.rheMac10
Licenses: Artistic License 2.0
Synopsis: Full genome sequences for Macaca mulatta (UCSC version rheMac10)
Description:

Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac10, Feb. 2019) and stored in Biostrings objects.

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
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-bsgenome-mmulatta-ucsc-rhemac2 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.Mmulatta.UCSC.rheMac2
Licenses: Artistic License 2.0
Synopsis: Full 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.

r-bsgenome-mmusculus-ucsc-mm10-masked 1.4.3
Propagated dependencies: r-bsgenome-mmusculus-ucsc-mm10@1.4.3 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.Mmusculus.UCSC.mm10.masked
Licenses: Artistic License 2.0
Synopsis: Full masked genome sequences for Mus musculus (UCSC genome mm10, based on GRCm38.p6)
Description:

Full genome sequences for Mus musculus (Mouse) as provided by UCSC (genome mm10, based on GRCm38.p6) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmusculus.UCSC.mm10, except that each of them has the 2 following masks on top: (1) the mask of assembly gaps (AGAPS mask), and (2) the mask of intra-contig ambiguities (AMB mask).

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Total results: 68249