_            _    _        _         _
      /\ \         /\ \ /\ \     /\_\      / /\
      \_\ \       /  \ \\ \ \   / / /     / /  \
      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
     / /_ \ \   / / /\ \ \\ \___/ /     / / /\ \___\
    / / /\ \ \ / / /  \ \_\\ \ \_/      \ \ \ \/___/
   / / /  \/_// / /   / / / \ \ \        \ \ \
  / / /      / / /   / / /   \ \ \   _    \ \ \
 / / /      / / /___/ / /     \ \ \ /_/\__/ / /
/_/ /      / / /____\/ /       \ \_\\ \/___/ /
\_\/       \/_________/         \/_/ \_____\/

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-qtlizer 1.24.0
Propagated dependencies: r-stringi@1.8.7 r-httr@1.4.7 r-genomicranges@1.62.0 r-curl@7.0.0
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: https://bioconductor.org/packages/Qtlizer
Licenses: GPL 3
Build system: r
Synopsis: Comprehensive QTL annotation of GWAS results
Description:

This R package provides access to the Qtlizer web server. Qtlizer annotates lists of common small variants (mainly SNPs) and genes in humans with associated changes in gene expression using the most comprehensive database of published quantitative trait loci (QTLs).

r-qubicdata 1.38.0
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: http://github.com/zy26/QUBICdata
Licenses: FSDG-compatible FSDG-compatible
Build system: r
Synopsis: Data employed in the vignette of the QUBIC package
Description:

The data employed in the vignette of the QUBIC package. These data belong to Many Microbe Microarrays Database and STRING v10.

r-qcmetrics 1.48.0
Propagated dependencies: r-xtable@1.8-4 r-s4vectors@0.48.0 r-pander@0.6.6 r-knitr@1.50 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: http://lgatto.github.io/qcmetrics/articles/qcmetrics.html
Licenses: GPL 2
Build system: r
Synopsis: Framework for Quality Control
Description:

The package provides a framework for generic quality control of data. It permits to create, manage and visualise individual or sets of quality control metrics and generate quality control reports in various formats.

r-qplexanalyzer 1.28.2
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: https://bioconductor.org/packages/qPLEXanalyzer
Licenses: GPL 2
Build system: r
Synopsis: Tools for quantitative proteomics data analysis
Description:

This package provides tools for TMT based quantitative proteomics data analysis.

r-qplexdata 1.27.0
Propagated dependencies: r-qplexanalyzer@1.28.2 r-msnbase@2.36.0 r-knitr@1.50 r-dplyr@1.1.4
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: https://bioconductor.org/packages/qPLEXdata
Licenses: GPL 2
Build system: r
Synopsis: Data accompanying qPLEXanalyzer package
Description:

qPLEX-RIME and Full proteome TMT mass spectrometry datasets.

r-qsmooth 1.26.0
Propagated dependencies: r-sva@3.58.0 r-summarizedexperiment@1.40.0 r-hmisc@5.2-4
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: https://bioconductor.org/packages/qsmooth
Licenses: GPL 3
Build system: r
Synopsis: Smooth quantile normalization
Description:

Smooth quantile normalization is a generalization of quantile normalization, which is average of the two types of assumptions about the data generation process: quantile normalization and quantile normalization between groups.

r-qpcrnorm 1.68.0
Propagated dependencies: r-limma@3.66.0 r-biobase@2.70.0 r-affy@1.88.0
Channel: guix-bioc
Location: guix-bioc/packages/q.scm (guix-bioc packages q)
Home page: https://bioconductor.org/packages/qpcrNorm
Licenses: LGPL 2.0+
Build system: r
Synopsis: Data-driven normalization strategies for high-throughput qPCR data
Description:

The package contains functions to perform normalization of high-throughput qPCR data. Basic functions for processing raw Ct data plus functions to generate diagnostic plots are also available.

r-roastgsa 1.8.0
Propagated dependencies: r-rcolorbrewer@1.1-3 r-limma@3.66.0 r-gplots@3.2.0 r-ggplot2@4.0.1 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/roastgsa
Licenses: GPL 3
Build system: r
Synopsis: Rotation based gene set analysis
Description:

This package implements a variety of functions useful for gene set analysis using rotations to approximate the null distribution. It contributes with the implementation of seven test statistic scores that can be used with different goals and interpretations. Several functions are available to complement the statistical results with graphical representations.

r-randrotation 1.22.0
Propagated dependencies: r-rdpack@2.6.4
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/phettegger/randRotation
Licenses: GPL 3
Build system: r
Synopsis: Random Rotation Methods for High Dimensional Data with Batch Structure
Description:

This package provides a collection of methods for performing random rotations on high-dimensional, normally distributed data (e.g. microarray or RNA-seq data) with batch structure. The random rotation approach allows exact testing of dependent test statistics with linear models following arbitrary batch effect correction methods.

r-rtcga-clinical 20151101.40.0
Propagated dependencies: r-rtcga@1.40.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RTCGA.clinical
Licenses: GPL 2
Build system: r
Synopsis: Clinical datasets from The Cancer Genome Atlas Project
Description:

Package provides clinical datasets from The Cancer Genome Atlas Project for all cohorts types from http://gdac.broadinstitute.org/. Clinical data format is explained here https://wiki.nci.nih.gov/display/TCGA/Clinical+Data+Overview. Data from 2015-11-01 snapshot.

r-rnaseqcomp 1.40.0
Propagated dependencies: r-rcolorbrewer@1.1-3
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/tengmx/rnaseqcomp
Licenses: GPL 3
Build system: r
Synopsis: Benchmarks for RNA-seq Quantification Pipelines
Description:

Several quantitative and visualized benchmarks for RNA-seq quantification pipelines. Two-condition quantifications for genes, transcripts, junctions or exons by each pipeline with necessary meta information should be organized into numeric matrices in order to proceed the evaluation.

r-ramr 1.18.0
Propagated dependencies: r-seqinfo@1.0.0 r-s4vectors@0.48.0 r-rcpp@1.1.0 r-iranges@2.44.0 r-genomicranges@1.62.0 r-data-table@1.17.8 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/BBCG/ramr
Licenses: Artistic License 2.0
Build system: r
Synopsis: Detection of Rare Aberrantly Methylated Regions in Array and NGS Data
Description:

ramr is an R package for detection of epimutations (i.e., infrequent aberrant DNA methylation events) in large data sets obtained by methylation profiling using array or high-throughput methylation sequencing. In addition, package provides functions to visualize found aberrantly methylated regions (AMRs), to generate sets of all possible regions to be used as reference sets for enrichment analysis, and to generate biologically relevant test data sets for performance evaluation of AMR/DMR search algorithms.

r-rankprod 3.36.0
Propagated dependencies: r-rmpfr@1.1-2 r-gmp@0.7-5
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RankProd
Licenses: FSDG-compatible
Build system: r
Synopsis: Rank Product method for identifying differentially expressed genes with application in meta-analysis
Description:

Non-parametric method for identifying differentially expressed (up- or down- regulated) genes based on the estimated percentage of false predictions (pfp). The method can combine data sets from different origins (meta-analysis) to increase the power of the identification.

r-rolde 1.14.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/elolab/RolDE
Licenses: GPL 3
Build system: r
Synopsis: RolDE: Robust longitudinal Differential Expression
Description:

RolDE detects longitudinal differential expression between two conditions in noisy high-troughput data. Suitable even for data with a moderate amount of missing values.RolDE is a composite method, consisting of three independent modules with different approaches to detecting longitudinal differential expression. The combination of these diverse modules allows RolDE to robustly detect varying differences in longitudinal trends and expression levels in diverse data types and experimental settings.

r-rbm 1.42.0
Propagated dependencies: r-marray@1.88.0 r-limma@3.66.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RBM
Licenses: GPL 2+
Build system: r
Synopsis: RBM: a R package for microarray and RNA-Seq data analysis
Description:

Use A Resampling-Based Empirical Bayes Approach to Assess Differential Expression in Two-Color Microarrays and RNA-Seq data sets.

r-rmassbank 3.20.0
Dependencies: openbabel@3.1.1
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RMassBank
Licenses: Artistic License 2.0
Build system: r
Synopsis: Workflow to process tandem MS files and build MassBank records
Description:

Workflow to process tandem MS files and build MassBank records. Functions include automated extraction of tandem MS spectra, formula assignment to tandem MS fragments, recalibration of tandem MS spectra with assigned fragments, spectrum cleanup, automated retrieval of compound information from Internet databases, and export to MassBank records.

r-regsplice 1.36.0
Propagated dependencies: r-summarizedexperiment@1.40.0 r-s4vectors@0.48.0 r-pbapply@1.7-4 r-limma@3.66.0 r-glmnet@4.1-10 r-edger@4.8.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://github.com/lmweber/regsplice
Licenses: Expat
Build system: r
Synopsis: L1-regularization based methods for detection of differential splicing
Description:

Statistical methods for detection of differential splicing (differential exon usage) in RNA-seq and exon microarray data, using L1-regularization (lasso) to improve power.

r-rcwl 1.26.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/Rcwl
Licenses: GPL 2 FSDG-compatible
Build system: r
Synopsis: An R interface to the Common Workflow Language
Description:

The Common Workflow Language (CWL) is an open standard for development of data analysis workflows that is portable and scalable across different tools and working environments. Rcwl provides a simple way to wrap command line tools and build CWL data analysis pipelines programmatically within R. It increases the ease of usage, development, and maintenance of CWL pipelines.

r-rtcga-mirnaseq 1.38.0
Propagated dependencies: r-rtcga@1.40.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RTCGA.miRNASeq
Licenses: GPL 2
Build system: r
Synopsis: miRNASeq datasets from The Cancer Genome Atlas Project
Description:

Package provides miRNASeq datasets from The Cancer Genome Atlas Project for all available cohorts types from http://gdac.broadinstitute.org/. Data format is explained here https://wiki.nci.nih.gov/display/TCGA/miRNASeq#miRNASeq-DataOverview Data from 2015-11-01 snapshot.

r-rattus-norvegicus 1.3.1
Propagated dependencies: r-txdb-rnorvegicus-ucsc-rn5-refgene@3.12.0 r-organismdbi@1.52.0 r-org-rn-eg-db@3.22.0 r-go-db@3.22.0 r-genomicfeatures@1.62.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/Rattus.norvegicus
Licenses: Artistic License 2.0
Build system: r
Synopsis: Annotation package for the Rattus.norvegicus object
Description:

This package contains the Rattus.norvegicus object to access data from several related annotation packages.

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

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

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

r-rgu34acdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/rgu34acdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: rgu34acdf
Description:

This package provides a package containing an environment representing the RG_U34A.cdf file.

r-rsvsim 1.50.0
Propagated dependencies: r-shortread@1.68.0 r-iranges@2.44.0 r-genomicranges@1.62.0 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/r.scm (guix-bioc packages r)
Home page: https://bioconductor.org/packages/RSVSim
Licenses: LGPL 3
Build system: r
Synopsis: RSVSim: an R/Bioconductor package for the simulation of structural variations
Description:

RSVSim is a package for the simulation of deletions, insertions, inversion, tandem-duplications and translocations of various sizes in any genome available as FASTA-file or BSgenome data package. SV breakpoints can be placed uniformly accross the whole genome, with a bias towards repeat regions and regions of high homology (for hg19) or at user-supplied coordinates.

Total results: 2911