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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-impcdata 1.46.0
Propagated dependencies: r-rjson@0.2.23
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/IMPCdata
Licenses: FSDG-compatible
Build system: r
Synopsis: Retrieves data from IMPC database
Description:

Package contains methods for data retrieval from IMPC Database.

r-intercellar 2.16.0
Propagated dependencies: r-wordcloud2@0.2.1 r-visnetwork@2.1.4 r-umap@0.2.10.0 r-tidyr@1.3.1 r-tibble@3.3.0 r-signal@1.8-1 r-shinyfiles@0.9.3 r-shinyfeedback@0.4.0 r-shinydashboard@0.7.3 r-shinycssloaders@1.1.0 r-shinyalert@3.1.0 r-shiny@1.11.1 r-scales@1.4.0 r-rlang@1.1.6 r-readxl@1.4.5 r-plyr@1.8.9 r-plotly@4.11.0 r-igraph@2.2.1 r-htmlwidgets@1.6.4 r-htmltools@0.5.8.1 r-golem@0.5.1 r-ggplot2@4.0.1 r-fs@1.6.6 r-fmsb@0.7.6 r-factoextra@1.0.7 r-dt@0.34.0 r-dplyr@1.1.4 r-dendextend@1.19.1 r-data-table@1.17.8 r-config@0.3.2 r-complexheatmap@2.26.0 r-colourpicker@1.3.0 r-colorspace@2.1-2 r-circlize@0.4.16 r-biomart@2.66.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/martaint/InterCellar
Licenses: Expat
Build system: r
Synopsis: InterCellar: an R-Shiny app for interactive analysis and exploration of cell-cell communication in single-cell transcriptomics
Description:

InterCellar is implemented as an R/Bioconductor Package containing a Shiny app that allows users to interactively analyze cell-cell communication from scRNA-seq data. Starting from precomputed ligand-receptor interactions, InterCellar provides filtering options, annotations and multiple visualizations to explore clusters, genes and functions. Finally, based on functional annotation from Gene Ontology and pathway databases, InterCellar implements data-driven analyses to investigate cell-cell communication in one or multiple conditions.

r-illuminahumanv1-db 1.26.0
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/illuminaHumanv1.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illumina HumanWG6v1 annotation data (chip illuminaHumanv1)
Description:

Illumina HumanWG6v1 annotation data (chip illuminaHumanv1) assembled using data from public repositories.

r-illuminahumanv2beadid-db 1.8.0
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/illuminaHumanv2BeadID.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illumina HumanWGv2 annotation data (chip illuminaHumanv2BeadID)
Description:

Illumina HumanWGv2 annotation data (chip illuminaHumanv2BeadID) assembled using data from public repositories to be used with data summarized from bead-level data with numeric ArrayAddressIDs as keys. Illumina probes with a No match or Bad quality score were removed prior to annotation. See http://www.compbio.group.cam.ac.uk/Resources/Annotation/index.html and Barbosa-Morais et al (2010) A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data. Nucleic Acids Research.

r-interactivecomplexheatmap 1.18.1
Propagated dependencies: r-svglite@2.2.2 r-shiny@1.11.1 r-s4vectors@0.48.0 r-rcolorbrewer@1.1-3 r-kableextra@1.4.0 r-jsonlite@2.0.0 r-iranges@2.44.0 r-htmltools@0.5.8.1 r-getoptlong@1.0.5 r-fontawesome@0.5.3 r-digest@0.6.39 r-complexheatmap@2.26.0 r-clisymbols@1.2.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/jokergoo/InteractiveComplexHeatmap
Licenses: Expat
Build system: r
Synopsis: Make Interactive Complex Heatmaps
Description:

This package can easily make heatmaps which are produced by the ComplexHeatmap package into interactive applications. It provides two types of interactivities: 1. on the interactive graphics device, and 2. on a Shiny app. It also provides functions for integrating the interactive heatmap widgets for more complex Shiny app development.

r-illuminahumanmethylationmsaanno-ilm10a1-hg38 0.1.0
Propagated dependencies: r-minfi@1.56.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/jmacdon/IlluminaHumanMethylationMSAanno.ilm10a1.hg38
Licenses: Artistic License 2.0
Build system: r
Synopsis: Annotation for Illumina's MSA methylation arrays
Description:

An annotation package for Illumina's MSA methylation arrays.

r-idpr 1.20.0
Propagated dependencies: r-rlang@1.1.6 r-plyr@1.8.9 r-magrittr@2.0.4 r-jsonlite@2.0.0 r-ggplot2@4.0.1 r-dplyr@1.1.4 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/idpr
Licenses: LGPL 3+
Build system: r
Synopsis: Profiling and Analyzing Intrinsically Disordered Proteins in R
Description:

‘idpr’ aims to integrate tools for the computational analysis of intrinsically disordered proteins (IDPs) within R. This package is used to identify known characteristics of IDPs for a sequence of interest with easily reported and dynamic results. Additionally, this package includes tools for IDP-based sequence analysis to be used in conjunction with other R packages. Described in McFadden WM & Yanowitz JL (2022). "idpr: A package for profiling and analyzing Intrinsically Disordered Proteins in R." PloS one, 17(4), e0266929. <https://doi.org/10.1371/journal.pone.0266929>.

r-igblastr 1.0.11
Propagated dependencies: r-xtable@1.8-4 r-xml2@1.5.0 r-tibble@3.3.0 r-s4vectors@0.48.0 r-rvest@1.0.5 r-r-utils@2.13.0 r-jsonlite@2.0.0 r-iranges@2.44.0 r-httr@1.4.7 r-genomeinfodb@1.46.0 r-curl@7.0.0 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/igblastr
Licenses: Artistic License 2.0
Build system: r
Synopsis: User-friendly R Wrapper to IgBLAST
Description:

The igblastr package provides functions to conveniently install and use a local IgBLAST installation from within R. IgBLAST is described at <https://pubmed.ncbi.nlm.nih.gov/23671333/>. IgBLAST web interface: <https://www.ncbi.nlm.nih.gov/igblast/>.

r-illuminaratv1-db 1.26.0
Propagated dependencies: r-org-rn-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/illuminaRatv1.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illumina Ratv1 annotation data (chip illuminaRatv1)
Description:

Illumina Ratv1 annotation data (chip illuminaRatv1) assembled using data from public repositories.

r-illuminamousev1p1-db 1.26.0
Propagated dependencies: r-org-mm-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/illuminaMousev1p1.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illumina MouseWG6v1p1 annotation data (chip illuminaMousev1p1)
Description:

Illumina MouseWG6v1p1 annotation data (chip illuminaMousev1p1) assembled using data from public repositories.

r-iasva 1.28.0
Propagated dependencies: r-summarizedexperiment@1.40.0 r-irlba@2.3.5.1 r-cluster@2.1.8.1 r-biocparallel@1.44.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/iasva
Licenses: GPL 2
Build system: r
Synopsis: Iteratively Adjusted Surrogate Variable Analysis
Description:

Iteratively Adjusted Surrogate Variable Analysis (IA-SVA) is a statistical framework to uncover hidden sources of variation even when these sources are correlated. IA-SVA provides a flexible methodology to i) identify a hidden factor for unwanted heterogeneity while adjusting for all known factors; ii) test the significance of the putative hidden factor for explaining the unmodeled variation in the data; and iii), if significant, use the estimated factor as an additional known factor in the next iteration to uncover further hidden factors.

r-ichip 1.64.0
Propagated dependencies: r-limma@3.66.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/iChip
Licenses: GPL 2+
Build system: r
Synopsis: Bayesian Modeling of ChIP-chip Data Through Hidden Ising Models
Description:

Hidden Ising models are implemented to identify enriched genomic regions in ChIP-chip data. They can be used to analyze the data from multiple platforms (e.g., Affymetrix, Agilent, and NimbleGen), and the data with single to multiple replicates.

r-icare 1.38.0
Propagated dependencies: r-plotrix@3.8-13 r-hmisc@5.2-4 r-gtools@3.9.5
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/iCARE
Licenses: FSDG-compatible
Build system: r
Synopsis: Individualized Coherent Absolute Risk Estimation (iCARE)
Description:

An R package to build, validate and apply absolute risk models.

r-illuminahumanv4-db 1.26.0
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/illuminaHumanv4.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Illumina HumanHT12v4 annotation data (chip illuminaHumanv4)
Description:

Illumina HumanHT12v4 annotation data (chip illuminaHumanv4) assembled using data from public repositories.

r-idr2d 1.24.0
Dependencies: python@3.11.14
Propagated dependencies: r-stringr@1.6.0 r-scales@1.4.0 r-reticulate@1.44.1 r-magrittr@2.0.4 r-iranges@2.44.0 r-idr@1.3 r-ggplot2@4.0.1 r-genomicranges@1.62.0 r-genomeinfodb@1.46.0 r-futile-logger@1.4.3 r-dplyr@1.1.4
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://idr2d.mit.edu
Licenses: Expat
Build system: r
Synopsis: Irreproducible Discovery Rate for Genomic Interactions Data
Description:

This package provides a tool to measure reproducibility between genomic experiments that produce two-dimensional peaks (interactions between peaks), such as ChIA-PET, HiChIP, and HiC. idr2d is an extension of the original idr package, which is intended for (one-dimensional) ChIP-seq peaks.

r-iseq 1.62.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bioconductor.org/packages/iSeq
Licenses: GPL 2+
Build system: r
Synopsis: Bayesian Hierarchical Modeling of ChIP-seq Data Through Hidden Ising Models
Description:

Bayesian hidden Ising models are implemented to identify IP-enriched genomic regions from ChIP-seq data. They can be used to analyze ChIP-seq data with and without controls and replicates.

r-iggeneusage 1.24.0
Propagated dependencies: r-tidyr@1.3.1 r-summarizedexperiment@1.40.0 r-stanheaders@2.32.10 r-rstantools@2.5.0 r-rstan@2.32.7 r-reshape2@1.4.5 r-rcppparallel@5.1.11-1 r-rcppeigen@0.3.4.0.2 r-rcpp@1.1.0 r-bh@1.87.0-1
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/snaketron/IgGeneUsage
Licenses: Expat
Build system: r
Synopsis: Differential gene usage in immune repertoires
Description:

Detection of biases in the usage of immunoglobulin (Ig) genes is an important task in immune repertoire profiling. IgGeneUsage detects aberrant Ig gene usage between biological conditions using a probabilistic model which is analyzed computationally by Bayes inference. With this IgGeneUsage also avoids some common problems related to the current practice of null-hypothesis significance testing.

r-iseeu 1.22.0
Propagated dependencies: r-summarizedexperiment@1.40.0 r-singlecellexperiment@1.32.0 r-shinyace@0.4.4 r-shiny@1.11.1 r-s4vectors@0.48.0 r-iseehex@1.12.0 r-isee@2.22.0 r-iranges@2.44.0 r-ggplot2@4.0.1 r-dt@0.34.0 r-colourpicker@1.3.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/iSEE/iSEEu
Licenses: Expat
Build system: r
Synopsis: iSEE Universe
Description:

iSEEu (the iSEE universe) contains diverse functionality to extend the usage of the iSEE package, including additional classes for the panels, or modes allowing easy configuration of iSEE applications.

r-informeasure 1.20.0
Propagated dependencies: r-entropy@1.3.2
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/chupan1218/Informeasure
Licenses: Artistic License 2.0
Build system: r
Synopsis: R implementation of information measures
Description:

This package consolidates a comprehensive set of information measurements, encompassing mutual information, conditional mutual information, interaction information, partial information decomposition, and part mutual information.

r-iseefier 1.6.0
Propagated dependencies: r-visnetwork@2.1.4 r-summarizedexperiment@1.40.0 r-singlecellexperiment@1.32.0 r-rlang@1.1.6 r-iseeu@1.22.0 r-isee@2.22.0 r-igraph@2.2.1 r-ggplot2@4.0.1 r-biocbaseutils@1.12.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/NajlaAbassi/iSEEfier
Licenses: Expat
Build system: r
Synopsis: Streamlining the creation of initial states for starting an iSEE instance
Description:

iSEEfier provides a set of functionality to quickly and intuitively create, inspect, and combine initial configuration objects. These can be conveniently passed in a straightforward manner to the function call to launch iSEE() with the specified configuration. This package currently works seamlessly with the sets of panels provided by the iSEE and iSEEu packages, but can be extended to accommodate the usage of any custom panel (e.g. from iSEEde, iSEEpathways, or any panel developed independently by the user).

r-illuminahumanmethylationepicanno-ilm10b3-hg19 0.6.0
Propagated dependencies: r-minfi@1.56.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://bitbucket.com/kasperdanielhansen/Illumina_EPIC
Licenses: Artistic License 2.0
Build system: r
Synopsis: Annotation for Illumina's EPIC methylation arrays
Description:

An annotation package for Illumina's EPIC methylation arrays.

r-iterativebma 1.68.0
Propagated dependencies: r-leaps@3.2 r-bma@3.18.20 r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: http://faculty.washington.edu/kayee/research.html
Licenses: GPL 2+
Build system: r
Synopsis: The Iterative Bayesian Model Averaging (BMA) algorithm
Description:

The iterative Bayesian Model Averaging (BMA) algorithm is a variable selection and classification algorithm with an application of classifying 2-class microarray samples, as described in Yeung, Bumgarner and Raftery (Bioinformatics 2005, 21: 2394-2402).

r-intact 1.10.0
Propagated dependencies: r-tidyr@1.3.1 r-squarem@2021.1 r-numderiv@2016.8-1.1 r-ggplot2@4.0.1 r-bdsmatrix@1.3-7
Channel: guix-bioc
Location: guix-bioc/packages/i.scm (guix-bioc packages i)
Home page: https://github.com/jokamoto97/INTACT
Licenses: FSDG-compatible
Build system: r
Synopsis: Integrate TWAS and Colocalization Analysis for Gene Set Enrichment Analysis
Description:

This package integrates colocalization probabilities from colocalization analysis with transcriptome-wide association study (TWAS) scan summary statistics to implicate genes that may be biologically relevant to a complex trait. The probabilistic framework implemented in this package constrains the TWAS scan z-score-based likelihood using a gene-level colocalization probability. Given gene set annotations, this package can estimate gene set enrichment using posterior probabilities from the TWAS-colocalization integration step.

Total results: 2909