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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-hgu95av2probe 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/hgu95av2probe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type hgu95av2
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\_U95Av2\_probe\_tab.

r-hmp2data 1.24.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://github.com/jstansfield0/HMP2Data
Licenses: Artistic License 2.0
Build system: r
Synopsis: 16s rRNA sequencing data from the Human Microbiome Project 2
Description:

HMP2Data is a Bioconductor package of the Human Microbiome Project 2 (HMP2) 16S rRNA sequencing data. Processed data is provided as phyloseq, SummarizedExperiment, and MultiAssayExperiment class objects. Individual matrices and data.frames used for building these S4 class objects are also provided in the package.

r-hivprtplus2cdf 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/hivprtplus2cdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: hivprtplus2cdf
Description:

This package provides a package containing an environment representing the HIV PRTPlus 2.CDF file.

r-hicdoc 1.12.0
Dependencies: zlib@1.3.1
Propagated dependencies: r-summarizedexperiment@1.40.0 r-seqinfo@1.0.0 r-s4vectors@0.48.0 r-rcpp@1.1.0 r-pbapply@1.7-4 r-multihiccompare@1.28.0 r-interactionset@1.38.0 r-gtools@3.9.5 r-gridextra@2.3 r-ggplot2@4.0.1 r-genomicranges@1.62.0 r-data-table@1.17.8 r-cowplot@1.2.0 r-biocparallel@1.44.0 r-biocgenerics@0.56.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://github.com/mzytnicki/HiCDOC
Licenses: LGPL 3
Build system: r
Synopsis: A/B compartment detection and differential analysis
Description:

HiCDOC normalizes intrachromosomal Hi-C matrices, uses unsupervised learning to predict A/B compartments from multiple replicates, and detects significant compartment changes between experiment conditions. It provides a collection of functions assembled into a pipeline to filter and normalize the data, predict the compartments and visualize the results. It accepts several type of data: tabular `.tsv` files, Cooler `.cool` or `.mcool` files, Juicer `.hic` files or HiC-Pro `.matrix` and `.bed` files.

r-hu35ksubccdf 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/hu35ksubccdf
Licenses: LGPL 2.0+
Build system: r
Synopsis: hu35ksubccdf
Description:

This package provides a package containing an environment representing the Hu35KsubC.CDF file.

r-hta20transcriptcluster-db 8.8.0
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/hta20transcriptcluster.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix hta20 annotation data (chip hta20transcriptcluster)
Description:

Affymetrix hta20 annotation data (chip hta20transcriptcluster) assembled using data from public repositories.

r-hgu95b-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/hgu95b.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix HG_U95B Array annotation data (chip hgu95b)
Description:

Affymetrix Affymetrix HG_U95B Array annotation data (chip hgu95b) assembled using data from public repositories.

r-hgu95cprobe 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/hgu95cprobe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type hgu95c
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-U95C\_probe\_tab.

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

This package provides a package containing an environment representing the HT_Rat-Focus.cdf file.

r-hapmap500ksty 1.52.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hapmap500ksty
Licenses: GPL 2+ GPL 3+
Build system: r
Synopsis: Sample data - Hapmap 500K STY Affymetrix
Description:

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

r-hicpotts 1.0.0
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-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-huex10sttranscriptcluster-db 8.8.0
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/huex10sttranscriptcluster.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix huex10 annotation data (chip huex10sttranscriptcluster)
Description:

Affymetrix huex10 annotation data (chip huex10sttranscriptcluster) assembled using data from public repositories.

r-hgu133a2-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/hgu133a2.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix HG-U133A_2 Array annotation data (chip hgu133a2)
Description:

Affymetrix Affymetrix HG-U133A_2 Array annotation data (chip hgu133a2) assembled using data from public repositories.

r-healthyflowdata 1.48.0
Propagated dependencies: r-flowcore@2.22.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/healthyFlowData
Licenses: Artistic License 2.0
Build system: r
Synopsis: Healthy dataset used by the flowMatch package
Description:

This package provides a healthy dataset with 20 flow cytometry samples used by the flowMatch package.

r-hgu133afrmavecs 1.5.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/hgu133afrmavecs
Licenses: GPL 2+
Build system: r
Synopsis: Vectors used by frma for microarrays of type hgu133a
Description:

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

r-humanchrloc 2.1.6
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/humanCHRLOC
Licenses: FSDG-compatible
Build system: r
Synopsis: data package containing annotation data for humanCHRLOC
Description:

Annotation data file for humanCHRLOC assembled using data from public data repositories.

r-htrat230pmprobe 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/htrat230pmprobe
Licenses: LGPL 2.0+
Build system: r
Synopsis: Probe sequence data for microarrays of type htrat230pm
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 HT\_Rat230\_PM\_probe\_tab.

r-h5vc 2.44.0
Propagated dependencies: r-s4vectors@0.48.0 r-rsamtools@2.26.0 r-rhtslib@3.6.0 r-rhdf5@2.54.0 r-reshape@0.8.10 r-iranges@2.44.0 r-h5vcdata@2.30.0 r-gridextra@2.3 r-ggplot2@4.0.1 r-genomicranges@1.62.0 r-genomeinfodb@1.46.0 r-biostrings@2.78.0 r-biocparallel@1.44.0 r-batchjobs@1.10 r-abind@1.4-8
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/h5vc
Licenses: GPL 3+
Build system: r
Synopsis: Managing alignment tallies using a hdf5 backend
Description:

This package contains functions to interact with tally data from NGS experiments that is stored in HDF5 files.

r-hgc 1.18.0
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://bioconductor.org/packages/HGC
Licenses: GPL 3
Build system: r
Synopsis: fast hierarchical graph-based clustering method
Description:

HGC (short for Hierarchical Graph-based Clustering) is an R package for conducting hierarchical clustering on large-scale single-cell RNA-seq (scRNA-seq) data. The key idea is to construct a dendrogram of cells on their shared nearest neighbor (SNN) graph. HGC provides functions for building graphs and for conducting hierarchical clustering on the graph. The users with old R version could visit https://github.com/XuegongLab/HGC/tree/HGC4oldRVersion to get HGC package built for R 3.6.

r-hthgu133a-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/hthgu133a.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Affymetrix HT_HG-U133A Array annotation data (chip hthgu133a)
Description:

Affymetrix Affymetrix HT_HG-U133A Array annotation data (chip hthgu133a) assembled using data from public repositories.

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-hyper 2.8.2
Channel: guix-bioc
Location: guix-bioc/packages/h.scm (guix-bioc packages h)
Home page: https://github.com/montilab/hypeR
Licenses: FSDG-compatible
Build system: r
Synopsis: An R Package For Geneset Enrichment Workflows
Description:

An R Package for Geneset Enrichment Workflows.

r-hgu219-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/hgu219.db
Licenses: Artistic License 2.0
Build system: r
Synopsis: Affymetrix Human Genome 219 Plate annotation data (chip hgu219)
Description:

Affymetrix Human Genome 219 Plate annotation data (chip hgu219) assembled using data from public repositories.

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Total results: 69112