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      /\__ \     / /\ \ \\ \ \_/ / /     / / /\ \__
     / /_ \ \   / / /\ \ \\ \___/ /     / / /\ \___\
    / / /\ \ \ / / /  \ \_\\ \ \_/      \ \ \ \/___/
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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-pd-porgene-1-0-st 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.porgene.1.0.st
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for Affymetrix PorGene-1_0-st
Description:

Platform Design Info for Affymetrix PorGene-1_0-st.

r-ptairms 1.18.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/ptairMS
Licenses: GPL 3
Synopsis: Pre-processing PTR-TOF-MS Data
Description:

This package implements a suite of methods to preprocess data from PTR-TOF-MS instruments (HDF5 format) and generates the sample by features table of peak intensities in addition to the sample and feature metadata (as a singl<e ExpressionSet object for subsequent statistical analysis). This package also permit usefull tools for cohorts management as analyzing data progressively, visualization tools and quality control. The steps include calibration, expiration detection, peak detection and quantification, feature alignment, missing value imputation and feature annotation. Applications to exhaled air and cell culture in headspace are described in the vignettes and examples. This package was used for data analysis of Gassin Delyle study on adults undergoing invasive mechanical ventilation in the intensive care unit due to severe COVID-19 or non-COVID-19 acute respiratory distress syndrome (ARDS), and permit to identfy four potentiel biomarquers of the infection.

r-pd-cytogenetics-array 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.cytogenetics.array
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for Affymetrix Cytogenetics_Array
Description:

Platform Design Info for Affymetrix Cytogenetics_Array.

r-pd-u133-x3p 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.u133.x3p
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for The Manufacturer's Name U133_X3P
Description:

Platform Design Info for The Manufacturer's Name U133_X3P.

r-psichomics 1.36.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://nuno-agostinho.github.io/psichomics/
Licenses: Expat
Synopsis: Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation
Description:

Interactive R package with an intuitive Shiny-based graphical interface for alternative splicing quantification and integrative analyses of alternative splicing and gene expression based on The Cancer Genome Atlas (TCGA), the Genotype-Tissue Expression project (GTEx), Sequence Read Archive (SRA) and user-provided data. The tool interactively performs survival, dimensionality reduction and median- and variance-based differential splicing and gene expression analyses that benefit from the incorporation of clinical and molecular sample-associated features (such as tumour stage or survival). Interactive visual access to genomic mapping and functional annotation of selected alternative splicing events is also included.

r-pvac 1.58.0
Propagated dependencies: r-biobase@2.68.0 r-affy@1.86.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pvac
Licenses: LGPL 2.0+
Synopsis: PCA-based gene filtering for Affymetrix arrays
Description:

The package contains the function for filtering genes by the proportion of variation accounted for by the first principal component (PVAC).

r-primirtss 1.28.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://github.com/ipumin/primirTSS
Licenses: GPL 2
Synopsis: Prediction of pri-miRNA Transcription Start Site
Description:

This package provides a fast, convenient tool to identify the TSSs of miRNAs by integrating the data of H3K4me3 and Pol II as well as combining the conservation level and sequence feature, provided within both command-line and graphical interfaces, which achieves a better performance than the previous non-cell-specific methods on miRNA TSSs.

r-pwmenrich 4.46.0
Propagated dependencies: r-seqlogo@1.74.0 r-s4vectors@0.46.0 r-gdata@3.0.1 r-evd@2.3-7.1 r-biostrings@2.76.0 r-biocgenerics@0.54.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/PWMEnrich
Licenses: LGPL 2.0+
Synopsis: PWM enrichment analysis
Description:

This package provides a toolkit of high-level functions for DNA motif scanning and enrichment analysis built upon Biostrings. The main functionality is PWM enrichment analysis of already known PWMs (e.g. from databases such as MotifDb), but the package also implements high-level functions for PWM scanning and visualisation. The package does not perform "de novo" motif discovery, but is instead focused on using motifs that are either experimentally derived or computationally constructed by other tools.

r-pd-clariom-s-mouse-ht 3.14.1
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.clariom.s.mouse.ht
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for Affymetrix Clariom_S_Mouse_HT
Description:

Platform Design Info for Affymetrix Clariom_S_Mouse_HT.

r-pd-yg-s98 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.yg.s98
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for The Manufacturer's Name YG_S98
Description:

Platform Design Info for The Manufacturer's Name YG_S98.

r-pd-canine 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.canine
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for The Manufacturer's Name Canine
Description:

Platform Design Info for The Manufacturer's Name Canine.

r-pd-mogene-2-0-st 3.14.1
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.mogene.2.0.st
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for Affymetrix MoGene-2_0-st
Description:

Platform Design Info for Affymetrix MoGene-2_0-st.

r-pd-drogene-1-1-st 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.drogene.1.1.st
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for Affymetrix DroGene-1_1-st
Description:

Platform Design Info for Affymetrix DroGene-1_1-st.

r-pirat 1.4.4
Propagated dependencies: r-summarizedexperiment@1.38.1 r-s4vectors@0.46.0 r-reticulate@1.42.0 r-progress@1.2.3 r-mass@7.3-65 r-invgamma@1.1 r-ggplot2@3.5.2 r-basilisk@1.20.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: http://www.prostar-proteomics.org/
Licenses: GPL 2
Synopsis: Precursor or Peptide Imputation under Random Truncation
Description:

Pirat enables the imputation of missing values (either MNARs or MCARs) in bottom-up LC-MS/MS proteomics data using a penalized maximum likelihood strategy. It does not require any parameter tuning, it models the instrument censorship from the data available. It accounts for sibling peptides correlations and it can leverage complementary transcriptomics measurements.

r-pd-pae-g1a 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.pae.g1a
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for The Manufacturer's Name Pae_G1a
Description:

Platform Design Info for The Manufacturer's Name Pae_G1a.

r-pepsnmrdata 1.28.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/PepsNMRData
Licenses: GPL 2 FSDG-compatible
Synopsis: Datasets for the PepsNMR package
Description:

This package contains all the datasets used in the PepsNMR package.

r-pairkat 1.16.0
Propagated dependencies: r-tibble@3.2.1 r-summarizedexperiment@1.38.1 r-magrittr@2.0.3 r-keggrest@1.48.0 r-igraph@2.1.4 r-data-table@1.17.4 r-compquadform@1.4.3
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pairkat
Licenses: GPL 3
Synopsis: PaIRKAT
Description:

PaIRKAT is model framework for assessing statistical relationships between networks of metabolites (pathways) and an outcome of interest (phenotype). PaIRKAT queries the KEGG database to determine interactions between metabolites from which network connectivity is constructed. This model framework improves testing power on high dimensional data by including graph topography in the kernel machine regression setting. Studies on high dimensional data can struggle to include the complex relationships between variables. The semi-parametric kernel machine regression model is a powerful tool for capturing these types of relationships. They provide a framework for testing for relationships between outcomes of interest and high dimensional data such as metabolomic, genomic, or proteomic pathways. PaIRKAT uses known biological connections between high dimensional variables by representing them as edges of ‘graphs’ or ‘networks.’ It is common for nodes (e.g. metabolites) to be disconnected from all others within the graph, which leads to meaningful decreases in testing power whether or not the graph information is included. We include a graph regularization or ‘smoothing’ approach for managing this issue.

r-prostatecancercamcap 1.38.0
Propagated dependencies: r-biobase@2.68.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/prostateCancerCamcap
Licenses: Artistic License 2.0
Synopsis: Prostate Cancer Data
Description:

This package provides a Bioconductor data package for the Ross-Adams (2015) Prostate Cancer dataset.

r-padma 1.20.0
Propagated dependencies: r-summarizedexperiment@1.38.1 r-s4vectors@0.46.0 r-multiassayexperiment@1.34.0 r-factominer@2.11
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://github.com/andreamrau/padma
Licenses: GPL 3+
Synopsis: Individualized Multi-Omic Pathway Deviation Scores Using Multiple Factor Analysis
Description:

Use multiple factor analysis to calculate individualized pathway-centric scores of deviation with respect to the sampled population based on multi-omic assays (e.g., RNA-seq, copy number alterations, methylation, etc). Graphical and numerical outputs are provided to identify highly aberrant individuals for a particular pathway of interest, as well as the gene and omics drivers of aberrant multi-omic profiles.

r-pd-elegene-1-1-st 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.elegene.1.1.st
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for Affymetrix EleGene-1_1-st
Description:

Platform Design Info for Affymetrix EleGene-1_1-st.

r-prone 1.4.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://github.com/daisybio/PRONE
Licenses: GPL 3+
Synopsis: The PROteomics Normalization Evaluator
Description:

High-throughput omics data are often affected by systematic biases introduced throughout all the steps of a clinical study, from sample collection to quantification. Normalization methods aim to adjust for these biases to make the actual biological signal more prominent. However, selecting an appropriate normalization method is challenging due to the wide range of available approaches. Therefore, a comparative evaluation of unnormalized and normalized data is essential in identifying an appropriate normalization strategy for a specific data set. This R package provides different functions for preprocessing, normalizing, and evaluating different normalization approaches. Furthermore, normalization methods can be evaluated on downstream steps, such as differential expression analysis and statistical enrichment analysis. Spike-in data sets with known ground truth and real-world data sets of biological experiments acquired by either tandem mass tag (TMT) or label-free quantification (LFQ) can be analyzed.

r-proper 1.42.0
Propagated dependencies: r-edger@4.6.2
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/PROPER
Licenses: GPL 2+ GPL 3+
Synopsis: PROspective Power Evaluation for RNAseq
Description:

This package provide simulation based methods for evaluating the statistical power in differential expression analysis from RNA-seq data.

r-pd-mu11ksubb 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.mu11ksubb
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for The Manufacturer's Name Mu11KsubB
Description:

Platform Design Info for The Manufacturer's Name Mu11KsubB.

r-pd-mg-u74cv2 3.12.0
Propagated dependencies: r-s4vectors@0.46.0 r-rsqlite@2.3.11 r-oligoclasses@1.70.0 r-oligo@1.72.0 r-iranges@2.42.0 r-dbi@1.2.3 r-biostrings@2.76.0
Channel: guix-bioc
Location: guix-bioc/packages/p.scm (guix-bioc packages p)
Home page: https://bioconductor.org/packages/pd.mg.u74cv2
Licenses: Artistic License 2.0
Synopsis: Platform Design Info for The Manufacturer's Name MG_U74Cv2
Description:

Platform Design Info for The Manufacturer's Name MG_U74Cv2.

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Total results: 45109