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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-huexexonprobesetlocation 1.15.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/HuExExonProbesetLocation
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type HuEx
Description:

This package was automatically created by package AnnotationForge version 1.7.17. The exon-level probeset genome location was retrieved from Netaffx using AffyCompatible.

r-human-db0 3.22.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/human.db0
Licenses: Artistic License 2.0
Build system: r
Synopsis: Base Level Annotation databases for human
Description:

Base annotation databases for human, intended ONLY to be used by AnnotationDbi to produce regular annotation packages.

r-hgu95c-db 3.13.0
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hgu95c.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix HG_U95C Array annotation data (chip hgu95c)
Description:

Affymetrix Affymetrix HG_U95C Array annotation data (chip hgu95c) assembled using data from public repositories.

r-hvp 1.0.0
Propagated dependencies: r-matrix@1.7-4
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/HVP
Licenses: Expat
Build system: r
Synopsis: Hierarchical Variance Partitioning
Description:

HVP is a quantitative batch effect metric that estimates the proportion of variance associated with batch effects in a data set.

r-help 1.68.0
Propagated dependencies: r-biobase@2.70.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/HELP
Licenses: GPL 2+
Build system: r
Synopsis: Tools for HELP data analysis
Description:

The package contains a modular pipeline for analysis of HELP microarray data, and includes graphical and mathematical tools with more general applications.

r-hicdcplus 1.18.0
Dependencies: zlib@1.3.1
Propagated dependencies: r-tidyr@1.3.1 r-tibble@3.3.0 r-s4vectors@0.48.0 r-rtracklayer@1.70.0 r-rlang@1.1.6 r-rcpp@1.1.0 r-r-utils@2.13.0 r-pscl@1.5.9 r-mass@7.3-65 r-iranges@2.44.0 r-interactionset@1.38.0 r-genomicranges@1.62.0 r-genomicinteractions@1.44.0 r-genomeinfodb@1.46.0 r-dplyr@1.1.4 r-data-table@1.17.8 r-bsgenome@1.78.0 r-biostrings@2.78.0 r-bbmle@1.0.25.1
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/HiCDCPlus
Licenses: GPL 3
Build system: r
Synopsis: Hi-C Direct Caller Plus
Description:

Systematic 3D interaction calls and differential analysis for Hi-C and HiChIP. The HiC-DC+ (Hi-C/HiChIP direct caller plus) package enables principled statistical analysis of Hi-C and HiChIP data sets – including calling significant interactions within a single experiment and performing differential analysis between conditions given replicate experiments – to facilitate global integrative studies. HiC-DC+ estimates significant interactions in a Hi-C or HiChIP experiment directly from the raw contact matrix for each chromosome up to a specified genomic distance, binned by uniform genomic intervals or restriction enzyme fragments, by training a background model to account for random polymer ligation and systematic sources of read count variation.

r-hapmap100kxba 1.52.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hapmap100kxba
Licenses: GPL 2+ GPL 3+
Build system: r
Synopsis: Sample data - Hapmap 100K XBA Affymetrix
Description:

Sample dataset obtained from http://www.hapmap.org.

r-hgu219probe 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hgu219probe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type hgu219
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 HG-U219\_probe\_tab.

r-htmg430pmcdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/htmg430pmcdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: htmg430pmcdf
Description:

This package provides a package containing an environment representing the HT_MG-430_PM.cdf file.

r-hpannot 1.1.1
Propagated dependencies: r-annotationhub@4.0.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hpAnnot
Licenses: GPL 2
Build system: r
Synopsis: Anotation package for Hipathia package
Description:

Package containing example and annotation data for Hipathia package. Hipathia is a method for the computation of signal transduction along signaling pathways from transcriptomic data. The method is based on an iterative algorithm which is able to compute the signal intensity passing through the nodes of a network by taking into account the level of expression of each gene and the intensity of the signal arriving to it. It also provides a new approach to functional analysis allowing to compute the signal arriving to the functions annotated to each pathway. Hipathia depends on this package to be functional.

r-hgu133bcdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hgu133bcdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: hgu133bcdf
Description:

This package provides a package containing an environment representing the HG-U133B.cdf file.

r-hapmapsnp6 1.52.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hapmapsnp6
Licenses: GPL 2+ GPL 3+
Build system: r
Synopsis: Sample data - Hapmap SNP 6.0 Affymetrix
Description:

Sample dataset obtained from http://www.hapmap.org.

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

r-hthgu133bcdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hthgu133bcdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: hthgu133bcdf
Description:

This package provides a package containing an environment representing the HT_HG-U133B.cdf file.

r-hgug4845a-db 0.0.3
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hgug4845a.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: agilent AMADID 026652 annotation data (chip hgug4845a)
Description:

agilent AMADID 026652 annotation data (chip hgug4845a) assembled using data from public repositories.

r-hguqiagenv3-db 3.2.3
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hguqiagenv3.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Qiagen Qiagen V3.0 oligo set annotation data (chip hguqiagenv3)
Description:

Qiagen Qiagen V3.0 oligo set annotation data (chip hguqiagenv3) assembled using data from public repositories.

r-human650v3acrlmm 1.0.3
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/human650v3aCrlmm
Licenses: Artistic License 2.0
Build system: r
Synopsis: Metadata for fast genotyping with the 'crlmm' package
Description:

Package with metadata for genotyping Illumina 650k arrays using the crlmm package.

r-huo22-db 3.2.3
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/HuO22.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: FHCRC Genomics Shared Resource HuO22 Annotation Data (HuO22)
Description:

FHCRC Genomics Shared Resource HuO22 Annotation Data (HuO22) assembled using data from public repositories.

r-hu35ksubbcdf 2.18.0
Propagated dependencies: r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hu35ksubbcdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: hu35ksubbcdf
Description:

This package provides a package containing an environment representing the Hu35KsubB.CDF file.

r-hthgu133afrmavecs 1.3.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hthgu133afrmavecs
Licenses: GPL 2+
Build system: r
Synopsis: Vectors used by frma for microarrays of type hthgu133a
Description:

This package was created by frmaTools version 1.19.3 and hgu133ahsentrezgcdf version 19.0.0.

r-hicpotts 1.0.0
Propagated dependencies: r-strawr@0.0.92 r-s4vectors@0.48.0 r-rtracklayer@1.70.0 r-rhdf5@2.54.0 r-rcpparmadillo@15.2.2-1 r-rcpp@1.1.0 r-iranges@2.44.0 r-genomicranges@1.62.0 r-bsgenome-dmelanogaster-ucsc-dm6@1.4.1 r-bsgenome@1.78.0 r-biostrings@2.78.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://github.com/igosungithub/HiCPotts
Licenses: GPL 3
Build system: r
Synopsis: HiCPotts: Hierarchical Modeling to Identify and Correct Genomic Biases in Hi-C
Description:

The HiCPotts package provides a comprehensive Bayesian framework for analyzing Hi-C interaction data, integrating both spatial and genomic biases within a probabilistic modeling framework. At its core, HiCPotts leverages the Potts model (Wu, 1982)—a well-established graphical model—to capture and quantify spatial dependencies across interaction loci arranged on a genomic lattice. By treating each interaction as a spatially correlated random variable, the Potts model enables robust segmentation of the genomic landscape into meaningful components, such as noise, true signals, and false signals. To model the influence of various genomic biases, HiCPotts employs a regression-based approach incorporating multiple covariates: Genomic distance (D): The distance between interacting loci, recognized as a fundamental driver of contact frequency. GC-content (GC): The local GC composition around the interacting loci, which can influence chromatin structure and interaction patterns. Transposable elements (TEs): The presence and abundance of repetitive elements that may shape contact probability through chromatin organization. Accessibility score (Acc): A measure of chromatin openness, informing how accessible certain genomic regions are to interaction. By embedding these covariates into a hierarchical mixture model, HiCPotts characterizes each interaction’s probability of belonging to one of several latent components. The model parameters, including regression coefficients, zero-inflation parameters (for ZIP/ZINB distributions), and dispersion terms (for NB/ZINB distributions), are inferred via a MCMC sampler. This algorithm draws samples from the joint posterior distribution, allowing for flexible posterior inference on model parameters and hidden states. From these posterior samples, HiCPotts computes posterior means of regression parameters and other quantities of interest. These posterior estimates are then used to calculate the posterior probabilities that assign each interaction to a specific component. The resulting classification sheds light on the underlying structure: distinguishing genuine high-confidence interactions (signal) from background noise and potential false signals, while simultaneously quantifying the impact of genomic biases on observed interaction frequencies. In summary, HiCPotts seamlessly integrates spatial modeling, bias correction, and probabilistic classification into a unified Bayesian inference framework. It provides rich posterior summaries and interpretable, model-based assignments of interaction states, enabling researchers to better understand the interplay between genomic organization, biases, and spatial correlation in Hi-C data.

r-hippo 1.22.0
Propagated dependencies: r-umap@0.2.10.0 r-singlecellexperiment@1.32.0 r-rtsne@0.17 r-rlang@1.1.6 r-reshape2@1.4.5 r-matrix@1.7-4 r-magrittr@2.0.4 r-irlba@2.3.5.1 r-gridextra@2.3 r-ggrepel@0.9.6 r-ggplot2@4.0.1 r-dplyr@1.1.4
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://github.com/tk382/HIPPO
Licenses: FSDG-compatible
Build system: r
Synopsis: Heterogeneity-Induced Pre-Processing tOol
Description:

For scRNA-seq data, it selects features and clusters the cells simultaneously for single-cell UMI data. It has a novel feature selection method using the zero inflation instead of gene variance, and computationally faster than other existing methods since it only relies on PCA+Kmeans rather than graph-clustering or consensus clustering.

r-hthgu133plusa-db 3.13.0
Propagated dependencies: r-org-hs-eg-db@3.22.0 r-annotationdbi@1.72.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hthgu133plusa.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix HT_HG-U133_Plus_A Array annotation data (chip hthgu133plusa)
Description:

Affymetrix Affymetrix HT_HG-U133_Plus_A Array annotation data (chip hthgu133plusa) assembled using data from public repositories.

Total results: 2909