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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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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-lumiratall-db 1.22.0
Propagated dependencies: r-org-rn-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/l.scm (guix-bioc packages l)
Home page: https://bioconductor.org/packages/lumiRatAll.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illumina Rat Illumina expression annotation data (chip lumiRatAll)
Description:

Illumina Rat Illumina expression annotation data (chip lumiRatAll) assembled using data from public repositories.

r-leebamviews 1.46.0
Propagated dependencies: r-s4vectors@0.48.0 r-rsamtools@2.26.0 r-iranges@2.44.0 r-genomicranges@1.62.0 r-genomicalignments@1.46.0 r-bsgenome@1.78.0 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/l.scm (guix-bioc packages l)
Home page: https://bioconductor.org/packages/leeBamViews
Licenses: FSDG-compatible
Build system: r
Synopsis: leeBamViews -- multiple yeast RNAseq samples excerpted from Lee 2009
Description:

data from PMID 19096707; prototype for managing multiple NGS samples.

r-lydata 1.36.0
Channel: guix-bioc
Location: guix-bioc/packages/l.scm (guix-bioc packages l)
Home page: https://bioconductor.org/packages/lydata
Licenses: Expat
Build system: r
Synopsis: Example Dataset for crossmeta Package
Description:

Raw data downloaded from GEO for the compound LY294002. Raw data is from multiple platforms from Affymetrix and Illumina. This data is used to illustrate the cross-platform meta-analysis of microarray data using the crossmeta package.

r-lbe 1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/l.scm (guix-bioc packages l)
Home page: https://bioconductor.org/packages/LBE
Licenses: GPL 2
Build system: r
Synopsis: Estimation of the false discovery rate
Description:

LBE is an efficient procedure for estimating the proportion of true null hypotheses, the false discovery rate (and so the q-values) in the framework of estimating procedures based on the marginal distribution of the p-values without assumption for the alternative hypothesis.

r-mu11ksuba-db 3.13.0
Propagated dependencies: r-org-mm-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mu11ksuba.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix Mu11KsubA Array annotation data (chip mu11ksuba)
Description:

Affymetrix Affymetrix Mu11KsubA Array annotation data (chip mu11ksuba) assembled using data from public repositories.

r-mu6500subbcdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mu6500subbcdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: mu6500subbcdf
Description:

This package provides a package containing an environment representing the Mu6500subB.CDF file.

r-methinheritsim 1.32.0
Propagated dependencies: r-seqinfo@1.0.0 r-s4vectors@0.48.0 r-msm@1.8.2 r-methylkit@1.36.0 r-iranges@2.44.0 r-genomicranges@1.62.0 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/belleau/methInheritSim
Licenses: Artistic License 2.0
Build system: r
Synopsis: Simulating Whole-Genome Inherited Bisulphite Sequencing Data
Description:

Simulate a multigeneration methylation case versus control experiment with inheritance relation using a real control dataset.

r-mbqn 2.22.0
Propagated dependencies: r-xml2@1.5.0 r-summarizedexperiment@1.40.0 r-rmarkdown@2.30 r-rcurl@1.98-1.17 r-rappdirs@0.3.3 r-preprocesscore@1.72.0 r-paireddata@1.1.1 r-limma@3.66.0 r-ggplot2@4.0.1 r-biocfilecache@3.0.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/arianeschad/mbqn
Licenses: FSDG-compatible
Build system: r
Synopsis: Mean/Median-balanced quantile normalization
Description:

Modified quantile normalization for omics or other matrix-like data distorted in location and scale.

r-maaslin3 1.2.0
Propagated dependencies: r-treesummarizedexperiment@2.18.0 r-tibble@3.3.0 r-survival@3.8-3 r-summarizedexperiment@1.40.0 r-scales@1.4.0 r-rlang@1.1.6 r-rcolorbrewer@1.1-3 r-plyr@1.8.9 r-pbapply@1.7-4 r-patchwork@1.3.2 r-optparse@1.7.5 r-multcomp@1.4-29 r-logging@0.10-108 r-lmertest@3.1-3 r-lme4@1.1-37 r-ggplot2@4.0.1 r-ggnewscale@0.5.2 r-dplyr@1.1.4 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: http://huttenhower.sph.harvard.edu/maaslin3
Licenses: Expat
Build system: r
Synopsis: "Refining and extending generalized multivariate linear models for meta-omic association discovery"
Description:

MaAsLin 3 refines and extends generalized multivariate linear models for meta-omicron association discovery. It finds abundance and prevalence associations between microbiome meta-omics features and complex metadata in population-scale epidemiological studies. The software includes multiple analysis methods (including support for multiple covariates, repeated measures, and ordered predictors), filtering, normalization, and transform options to customize analysis for your specific study.

r-mircomp 1.40.0
Propagated dependencies: r-mircompdata@1.40.0 r-kernsmooth@2.23-26 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/miRcomp
Licenses: GPL 3 FSDG-compatible
Build system: r
Synopsis: Tools to assess and compare miRNA expression estimatation methods
Description:

Based on a large miRNA dilution study, this package provides tools to read in the raw amplification data and use these data to assess the performance of methods that estimate expression from the amplification curves.

r-moex10stprobeset-db 8.8.0
Propagated dependencies: r-org-mm-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/moex10stprobeset.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix moex10 annotation data (chip moex10stprobeset)
Description:

Affymetrix moex10 annotation data (chip moex10stprobeset) assembled using data from public repositories.

r-mogene10stv1probe 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mogene10stv1probe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type mogene10stv1
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 MoGene-1\_0-st-v1\_probe\_tab.

r-mimager 1.34.0
Propagated dependencies: r-scales@1.4.0 r-s4vectors@0.48.0 r-preprocesscore@1.72.0 r-oligoclasses@1.72.0 r-oligo@1.74.0 r-gtable@0.3.6 r-dbi@1.2.3 r-biocgenerics@0.56.0 r-biobase@2.70.0 r-affyplm@1.86.0 r-affy@1.88.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/aaronwolen/mimager
Licenses: Expat
Build system: r
Synopsis: mimager: The Microarray Imager
Description:

Easily visualize and inspect microarrays for spatial artifacts.

r-mgu74bv2probe 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mgu74bv2probe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type mgu74bv2
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 MG-U74Bv2\_probe\_tab.

r-msqc1 1.38.0
Propagated dependencies: r-lattice@0.22-7
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://panoramaweb.org/labkey/MSQC1.url
Licenses: GPL 2+ GPL 3+
Build system: r
Synopsis: Sigma mix MSQC1 data
Description:

contains eight technical replicate data set and a three replicate dilution series of the MS Qual/Quant Quality Control Mix standard sample (Sigma-Aldrich, Buchs, Switzerland) measured on five different mass spectrometer platforms at the Functional Genomics Center Zurich.

r-mgu74cv2-db 3.13.0
Propagated dependencies: r-org-mm-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mgu74cv2.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix MG_U74Cv2 Array annotation data (chip mgu74cv2)
Description:

Affymetrix Affymetrix MG_U74Cv2 Array annotation data (chip mgu74cv2) assembled using data from public repositories.

r-mafdb-topmed-freeze5-hg19 3.10.0
Propagated dependencies: r-s4vectors@0.48.0 r-iranges@2.44.0 r-genomicscores@2.22.0 r-genomicranges@1.62.0 r-genomeinfodb@1.46.0 r-bsgenome@1.78.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/MafDb.TOPMed.freeze5.hg19
Licenses: Artistic License 2.0
Build system: r
Synopsis: Minor allele frequency data from TOPMed for hg19
Description:

Store minor allele frequency data from NHLBI TOPMed for the human genome version hg19.

r-mouseagingdata 1.6.0
Propagated dependencies: r-singlecellexperiment@1.32.0 r-experimenthub@3.0.0 r-annotationhub@4.0.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/ccb-hms/MouseAgingData
Licenses: Artistic License 2.0
Build system: r
Synopsis: Multi-omics data access for studies investigating the effects of aging
Description:

The MouseAgingData package provides analysis-ready data resources from different studies focused on aging and rejuvenation in mice. The package currently provides two 10x Genomics single-cell RNA-seq datasets. The first study profiled the aging mouse brain measured across 37,089 cells (Ximerakis et al., 2019). The second study investigated parabiosis by profiling a total of 105,329 cells (Ximerakis & Holton et al., 2023). The datasets are provided as SingleCellExperiment objects and provide raw UMI counts and cell metadata.

r-monalisa 1.16.0
Propagated dependencies: r-xvector@0.50.0 r-tidyr@1.3.1 r-tfbstools@1.48.0 r-summarizedexperiment@1.40.0 r-stabs@0.6-4 r-seqinfo@1.0.0 r-s4vectors@0.48.0 r-rsqlite@2.4.4 r-rlang@1.1.6 r-iranges@2.44.0 r-glmnet@4.1-10 r-ggplot2@4.0.1 r-genomicranges@1.62.0 r-complexheatmap@2.26.0 r-cli@3.6.5 r-circlize@0.4.16 r-bsgenome@1.78.0 r-biostrings@2.78.0 r-biocparallel@1.44.0 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/fmicompbio/monaLisa
Licenses: GPL 3+
Build system: r
Synopsis: Binned Motif Enrichment Analysis and Visualization
Description:

Useful functions to work with sequence motifs in the analysis of genomics data. These include methods to annotate genomic regions or sequences with predicted motif hits and to identify motifs that drive observed changes in accessibility or expression. Functions to produce informative visualizations of the obtained results are also provided.

r-mygene 1.46.0
Propagated dependencies: r-txdbmaker@1.6.0 r-sqldf@0.4-11 r-s4vectors@0.48.0 r-plyr@1.8.9 r-jsonlite@2.0.0 r-httr@1.4.7 r-hmisc@5.2-4 r-genomicfeatures@1.62.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mygene
Licenses: Artistic License 2.0
Build system: r
Synopsis: Access MyGene.Info_ services
Description:

MyGene.Info_ provides simple-to-use REST web services to query/retrieve gene annotation data. It's designed with simplicity and performance emphasized. *mygene*, is an easy-to-use R wrapper to access MyGene.Info_ services.

r-mouse4302-db 3.13.0
Propagated dependencies: r-org-mm-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/mouse4302.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix Mouse430_2 Array annotation data (chip mouse4302)
Description:

Affymetrix Affymetrix Mouse430_2 Array annotation data (chip mouse4302) assembled using data from public repositories.

r-methylgsa 1.28.0
Propagated dependencies: r-stringr@1.6.0 r-shiny@1.11.1 r-robustrankaggreg@1.2.1 r-reactome-db@1.94.0 r-org-hs-eg-db@3.22.0 r-missmethyl@1.44.0 r-illuminahumanmethylationepicanno-ilm10b4-hg19@0.6.0 r-illuminahumanmethylation450kanno-ilmn12-hg19@0.6.1 r-go-db@3.22.0 r-ggplot2@4.0.1 r-clusterprofiler@4.18.2 r-biocparallel@1.44.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/reese3928/methylGSA
Licenses: GPL 2
Build system: r
Synopsis: Gene Set Analysis Using the Outcome of Differential Methylation
Description:

The main functions for methylGSA are methylglm and methylRRA. methylGSA implements logistic regression adjusting number of probes as a covariate. methylRRA adjusts multiple p-values of each gene by Robust Rank Aggregation. For more detailed help information, please see the vignette.

r-metahdep 1.68.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/metahdep
Licenses: GPL 3
Build system: r
Synopsis: Hierarchical Dependence in Meta-Analysis
Description:

This package provides tools for meta-analysis in the presence of hierarchical (and/or sampling) dependence, including with gene expression studies.

r-metagxpancreas 1.30.0
Propagated dependencies: r-summarizedexperiment@1.40.0 r-s4vectors@0.48.0 r-impute@1.84.0 r-experimenthub@3.0.0 r-annotationhub@4.0.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/MetaGxPancreas
Licenses: Artistic License 2.0
Build system: r
Synopsis: Transcriptomic Pancreatic Cancer Datasets
Description:

This package provides a collection of pancreatic Cancer transcriptomic datasets that are part of the MetaGxData package compendium. This package contains multiple pancreas cancer datasets that have been downloaded from various resources and turned into SummarizedExperiment objects. The details of how the authors normalized the data can be found in the experiment data section of the objects. Additionally, the location the data was obtained from can be found in the url variables of the experiment data portion of each SE.

Total results: 2909