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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-mgu74av2-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/mgu74av2.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix MG_U74Av2 Array annotation data (chip mgu74av2)
Description:

Affymetrix Affymetrix MG_U74Av2 Array annotation data (chip mgu74av2) assembled using data from public repositories.

r-mirna10probe 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/mirna10probe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type mirna10
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 miRNA-1\_0\_probe\_tab.

r-mirit 1.6.2
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/jacopo-ronchi/MIRit
Licenses: GPL 3+
Build system: r
Synopsis: Integrate microRNA and gene expression to decipher pathway complexity
Description:

MIRit is an R package that provides several methods for investigating the relationships between miRNAs and genes in different biological conditions. In particular, MIRit allows to explore the functions of dysregulated miRNAs, and makes it possible to identify miRNA-gene regulatory axes that control biological pathways, thus enabling the users to unveil the complexity of miRNA biology. MIRit is an all-in-one framework that aims to help researchers in all the central aspects of an integrative miRNA-mRNA analyses, from differential expression analysis to network characterization.

r-mirbaseversions-db 1.1.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/miRBaseVersions.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Collection of mature miRNA names of 22 different miRBase release versions
Description:

Annotation package containing all available miRNA names from 22 versions (data from http://www.mirbase.org/).

r-mu19ksubccdf 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/mu19ksubccdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: mu19ksubccdf
Description:

This package provides a package containing an environment representing the Mu19KsubC.CDF file.

r-multiwgcna 1.7.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/multiWGCNA
Licenses: GPL 3
Build system: r
Synopsis: multiWGCNA
Description:

An R package for deeping mining gene co-expression networks in multi-trait expression data. Provides functions for analyzing, comparing, and visualizing WGCNA networks across conditions. multiWGCNA was designed to handle the common case where there are multiple biologically meaningful sample traits, such as disease vs wildtype across development or anatomical region.

r-methylcc 1.24.1
Propagated dependencies: r-s4vectors@0.48.0 r-quadprog@1.5-8 r-minfi@1.56.0 r-magrittr@2.0.4 r-iranges@2.44.0 r-illuminahumanmethylation450kmanifest@0.4.0 r-illuminahumanmethylation450kanno-ilmn12-hg19@0.6.1 r-genomicranges@1.62.0 r-genefilter@1.92.0 r-flowsorted-blood-450k@1.48.0 r-dplyr@1.1.4 r-bumphunter@1.52.0 r-bsseq@1.46.0 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/stephaniehicks/methylCC/
Licenses: GPL 3
Build system: r
Synopsis: Estimate the cell composition of whole blood in DNA methylation samples
Description:

This package provides a tool to estimate the cell composition of DNA methylation whole blood sample measured on any platform technology (microarray and sequencing).

r-miqc 1.18.0
Propagated dependencies: r-singlecellexperiment@1.32.0 r-ggplot2@4.0.1 r-flexmix@2.3-20
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/greenelab/miQC
Licenses: Modified BSD
Build system: r
Synopsis: Flexible, probabilistic metrics for quality control of scRNA-seq data
Description:

Single-cell RNA-sequencing (scRNA-seq) has made it possible to profile gene expression in tissues at high resolution. An important preprocessing step prior to performing downstream analyses is to identify and remove cells with poor or degraded sample quality using quality control (QC) metrics. Two widely used QC metrics to identify a ‘low-quality’ cell are (i) if the cell includes a high proportion of reads that map to mitochondrial DNA encoded genes (mtDNA) and (ii) if a small number of genes are detected. miQC is data-driven QC metric that jointly models both the proportion of reads mapping to mtDNA and the number of detected genes with mixture models in a probabilistic framework to predict the low-quality cells in a given dataset.

r-mgu74ccdf 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/mgu74ccdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: mgu74ccdf
Description:

This package provides a package containing an environment representing the MG_U74C.cdf file.

r-multiwgcnadata 1.8.0
Propagated dependencies: r-experimenthub@3.0.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/multiWGCNAdata
Licenses: Artistic License 2.0
Build system: r
Synopsis: Data Package for multiWGCNA
Description:

Stores expression profiling data from experiments compatible with the multiWGCNA R package. This includes human postmortem microarray data from patients and controls (GSE28521), astrocyte Ribotag RNA-seq data from EAE and wildtype mice (GSE100329), and mouse RNA-seq data from tau pathology (rTg4510) and wildtype control mice (GSE125957). These data can be accessed using the ExperimentHub workflow (see multiWGCNA vignettes).

r-mlseq 2.28.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/MLSeq
Licenses: FSDG-compatible
Build system: r
Synopsis: Machine Learning Interface for RNA-Seq Data
Description:

This package applies several machine learning methods, including SVM, bagSVM, Random Forest and CART to RNA-Seq data.

r-memes 1.18.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://snystrom.github.io/memes/
Licenses: Expat
Build system: r
Synopsis: motif matching, comparison, and de novo discovery using the MEME Suite
Description:

This package provides a seamless interface to the MEME Suite family of tools for motif analysis. memes provides data aware utilities for using GRanges objects as entrypoints to motif analysis, data structures for examining & editing motif lists, and novel data visualizations. memes functions and data structures are amenable to both base R and tidyverse workflows.

r-measurementerror-cor 1.82.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/MeasurementError.cor
Licenses: LGPL 2.0+
Build system: r
Synopsis: Measurement Error model estimate for correlation coefficient
Description:

Two-stage measurement error model for correlation estimation with smaller bias than the usual sample correlation.

r-mbpcr 1.64.0
Propagated dependencies: r-oligoclasses@1.72.0 r-gwastools@1.56.0 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: http://www.idsia.ch/~paola/mBPCR
Licenses: GPL 2+
Build system: r
Synopsis: Bayesian Piecewise Constant Regression for DNA copy number estimation
Description:

It contains functions for estimating the DNA copy number profile using mBPCR with the aim of detecting regions with copy number changes.

r-mogene20stprobeset-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/mogene20stprobeset.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix mogene20 annotation data (chip mogene20stprobeset)
Description:

Affymetrix mogene20 annotation data (chip mogene20stprobeset) assembled using data from public repositories.

r-mogene20sttranscriptcluster-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/mogene20sttranscriptcluster.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix mogene20 annotation data (chip mogene20sttranscriptcluster)
Description:

Affymetrix mogene20 annotation data (chip mogene20sttranscriptcluster) assembled using data from public repositories.

r-metacca 1.38.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://doi.org/10.1093/bioinformatics/btw052
Licenses: Expat
Build system: r
Synopsis: Summary Statistics-Based Multivariate Meta-Analysis of Genome-Wide Association Studies Using Canonical Correlation Analysis
Description:

metaCCA performs multivariate analysis of a single or multiple GWAS based on univariate regression coefficients. It allows multivariate representation of both phenotype and genotype. metaCCA extends the statistical technique of canonical correlation analysis to the setting where original individual-level records are not available, and employs a covariance shrinkage algorithm to achieve robustness.

r-mbttest 1.38.0
Propagated dependencies: r-gtools@3.9.5 r-gplots@3.2.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/MBttest
Licenses: GPL 3
Build system: r
Synopsis: Multiple Beta t-Tests
Description:

MBttest method was developed from beta t-test method of Baggerly et al(2003). Compared to baySeq (Hard castle and Kelly 2010), DESeq (Anders and Huber 2010) and exact test (Robinson and Smyth 2007, 2008) and the GLM of McCarthy et al(2012), MBttest is of high work efficiency,that is, it has high power, high conservativeness of FDR estimation and high stability. MBttest is suit- able to transcriptomic data, tag data, SAGE data (count data) from small samples or a few replicate libraries. It can be used to identify genes, mRNA isoforms or tags differentially expressed between two conditions.

r-martini 1.30.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://github.com/hclimente/martini
Licenses: GPL 3
Build system: r
Synopsis: GWAS Incorporating Networks
Description:

martini deals with the low power inherent to GWAS studies by using prior knowledge represented as a network. SNPs are the vertices of the network, and the edges represent biological relationships between them (genomic adjacency, belonging to the same gene, physical interaction between protein products). The network is scanned using SConES, which looks for groups of SNPs maximally associated with the phenotype, that form a close subnetwork.

r-maizeprobe 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/maizeprobe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type maize
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 Maize\_probe\_tab.

r-musicatk 2.4.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://www.camplab.net/musicatk/
Licenses: LGPL 3
Build system: r
Synopsis: Mutational Signature Comprehensive Analysis Toolkit
Description:

Mutational signatures are carcinogenic exposures or aberrant cellular processes that can cause alterations to the genome. We created musicatk (MUtational SIgnature Comprehensive Analysis ToolKit) to address shortcomings in versatility and ease of use in other pre-existing computational tools. Although many different types of mutational data have been generated, current software packages do not have a flexible framework to allow users to mix and match different types of mutations in the mutational signature inference process. Musicatk enables users to count and combine multiple mutation types, including SBS, DBS, and indels. Musicatk calculates replication strand, transcription strand and combinations of these features along with discovery from unique and proprietary genomic feature associated with any mutation type. Musicatk also implements several methods for discovery of new signatures as well as methods to infer exposure given an existing set of signatures. Musicatk provides functions for visualization and downstream exploratory analysis including the ability to compare signatures between cohorts and find matching signatures in COSMIC V2 or COSMIC V3.

r-mafdb-topmed-freeze5-hg38 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.hg38
Licenses: Artistic License 2.0
Build system: r
Synopsis: Minor allele frequency data from TOPMed for hg38
Description:

Store minor allele frequency data from NHLBI TOPMed for the human genome version hg38.

r-mgug4120a-db 3.2.3
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/mgug4120a.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Agilent annotation data (chip mgug4120a)
Description:

Agilent annotation data (chip mgug4120a) assembled using data from public repositories.

r-msmb 1.28.0
Channel: guix-bioc
Location: guix-bioc/packages/m.scm (guix-bioc packages m)
Home page: https://bioconductor.org/packages/MSMB
Licenses: LGPL 2.0+
Build system: r
Synopsis: Data sets for the book 'Modern Statistics for Biology'
Description:

Data sets for the book Modern Statistics for Modern Biology', S.P. Holmes and W. Huber.

Total results: 2911