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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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DoseFinding Resource Report Resource Website 1+ mentions |
DoseFinding (RRID:SCR_024268) | software toolkit, software resource | Software R package provides functions for design and analysis of dose finding experiments. Used for multiple contrast tests, fitting non-linear dose-response models, calculating optimal designs and implementation of MCPMod methodology. | dose finding experiments design and analysis functions, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-dosefinding/ | SCR_024268 | DoseFinding: Planning and Analyzing Dose Finding Experiments, r-cran-dosefinding | 2026-08-15 11:28:13 | 1 | ||||||||
|
distory Resource Report Resource Website |
distory (RRID:SCR_024269) | software toolkit, software resource | Software R package for geodesic distance between phylogenetic trees and associated functions. | geodesic distance, phylogenetic trees, associated functions, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_33012 | https://sources.debian.org/src/r-cran-distory/ | SCR_024269 | distory: Distance Between Phylogenetic Histories, r-cran-distory | 2026-08-15 11:28:22 | 0 | |||||||
|
alakazam Resource Report Resource Website 1+ mentions |
alakazam (RRID:SCR_024261) | software toolkit, software resource | Software R package for high-throughput adaptive immune receptor repertoire sequencing analysis. In particular, immunoglobulin sequence lineage reconstruction, lineage topology analysis, diversity profiling, amino acid property analysis and gene usage. | high throughput adaptive immune receptor repertoire sequencing analysis, sequencing analysis, | is listed by: Debian | PMID:26069265 | Free, Available for download, Freely available, | OMICS_21399 | https://sources.debian.org/src/r-cran-alakazam/ | SCR_024261 | 2026-08-15 11:28:13 | 6 | |||||||
|
ade4 Resource Report Resource Website 10+ mentions |
ade4 (RRID:SCR_024259) | software toolkit, software resource | Software R package for multivariate data analysis. Used for analysis of one-table, two-table, three-table and K-table. | multivariate data analysis, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-ade4/ | SCR_024259 | 2026-08-15 11:28:19 | 20 | |||||||||
|
bridgedbr Resource Report Resource Website |
bridgedbr (RRID:SCR_024231) | software toolkit, software resource | Software R pacakge provides functions and load identifier mapping databases in R. Uses GitHub, Zenodo, and Figshare if you use this package to download identifier mappings files. | R functions, load identifier mapping databases in R, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-bridgedbr/ | SCR_024231 | 2026-08-15 11:28:19 | 0 | |||||||||
|
CNEr Resource Report Resource Website |
CNEr (RRID:SCR_024233) | software toolkit, software resource | Software R package provides large scale identification and advanced visualization of sets of conserved noncoding elements. | identification and advanced visualization of sets, conserved noncoding elements, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_33013 | https://sources.debian.org/src/r-bioc-cner/ | SCR_024233 | 2026-08-15 11:28:21 | 0 | ||||||||
|
genomeinfodb Resource Report Resource Website 1+ mentions |
genomeinfodb (RRID:SCR_024235) | software toolkit, software resource | Software R package contains data and functions that define and allow translation between different chromosome sequence naming conventions, including function that attempts to place sequence names in their natural, rather than lexicographic order. | data and functions, translation between different chromosome sequence naming conventions, chromosome sequence naming conventions, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-genomeinfodb/ | SCR_024235 | 2026-08-15 11:28:21 | 4 | |||||||||
|
genomicalignments Resource Report Resource Website 100+ mentions |
genomicalignments (RRID:SCR_024236) | software toolkit, software resource | Software R package provides efficient containers for storing and manipulating short genomic alignments. This includes read counting, computing the coverage, junction detection, and working with the nucleotide content of the alignments. | containers for storing and manipulating short genomic alignments, read counting, computing coverage, junction detection, working with nucleotide content of alignments. | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-genomicalignments/ | SCR_024236 | 2026-08-15 11:28:19 | 147 | |||||||||
|
BiocGenerics Resource Report Resource Website 10+ mentions |
BiocGenerics (RRID:SCR_024226) | software toolkit, software resource | Software R package defines many S4 generic functions used in Bioconductor. | S4 generic functions used in Bioconductor, S4 generic functions, Bioconductor, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-biocgenerics/ | SCR_024226 | 2026-08-15 11:28:12 | 27 | |||||||||
|
biomformat Resource Report Resource Website |
biomformat (RRID:SCR_024228) | software toolkit, software resource | Software R package for interfacing with BIOM format. This package includes basic tools for reading biom-format files, accessing and subsetting data tables from a biom object, limited support for writing biom-object back to biom-format file. | interfacing with BIOM format, reading biom-format files, accessing and subsetting data tables from biom object, writing biom-object back to biom-format file, |
is listed by: Debian is related to: python-biom-format |
Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-biomformat/ | SCR_024228 | 2026-08-15 11:28:12 | 0 | |||||||||
|
biovizBase Resource Report Resource Website |
biovizBase (RRID:SCR_024229) | software toolkit, software resource | Software R package to provide set of utilities, color schemes and conventions for genomic data. Used for various high-level packages for biological data visualization. | utilities, color schemes and conventions for genomic data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-biovizbase/ | SCR_024229 | 2026-08-15 11:28:21 | 0 | |||||||||
|
go.db Resource Report Resource Website 10+ mentions |
go.db (RRID:SCR_024241) | software toolkit, software resource | Software R package provides set of annotation maps describing entire Gene Ontology assembled using data from GO. | set of annotation maps, Gene Ontology, data from GO, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_22608 | https://sources.debian.org/src/r-bioc-go.db/ | SCR_024241 | 2026-08-15 11:28:13 | 44 | ||||||||
|
impute Resource Report Resource Website 1+ mentions |
impute (RRID:SCR_024243) | software toolkit, software resource | Software R package for imputation for microarray data. | imputation for microarray data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-bioc-impute/ | SCR_024243 | 2026-08-15 11:28:19 | 5 | |||||||||
|
mergeomics Resource Report Resource Website 1+ mentions |
mergeomics (RRID:SCR_024244) | software toolkit, software resource | Software R pacakage for multidimensional data integration to identify pathogenic perturbations to biological systems. Used for integrating multidimensional omics disease associations, functional genomics, canonical pathways and gene-gene interaction networks to generate mechanistic hypotheses. Includes Marker set enrichment analysis and Weighted Key Driver Analysis parts. | integrating multidimensional omics disease associations, integrating functional genomics, integrating canonical pathways and gene-gene interaction networks, multidimensional data integration, identify pathogenic perturbations to biological systems, | is listed by: Debian | PMID:27814671 | Free, Available for download, Freely available, | OMICS_12862 | https://sources.debian.org/src/r-bioc-mergeomics/ | SCR_024244 | 2026-08-15 11:28:13 | 2 | |||||||
|
metagenomeseq Resource Report Resource Website 100+ mentions |
metagenomeseq (RRID:SCR_024246) | software toolkit, software resource | Software R package to determine features that are differentially abundant between two or more groups of multiple samples. Used to address the effects of both normalization and under-sampling of microbial communities on disease association detection and testing of feature correlations. | determine features that are differentially abundant, two or more groups of multiple samples, disease association detection, testing of feature correlations, | is listed by: Debian | OMICS_07813 | https://sources.debian.org/src/r-bioc-metagenomeseq/ | SCR_024246 | 2026-08-15 11:28:22 | 243 | |||||||||
|
gviz Resource Report Resource Website 10+ mentions |
gviz (RRID:SCR_024239) | software toolkit, software resource | Software R package to perform live annotation queries to Ensembl and UCSC and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. | genomic data analyses, perform live annotation queries, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_17191 | https://sources.debian.org/src/r-bioc-gviz/ | SCR_024239 | 2026-08-15 11:28:21 | 46 | ||||||||
|
psychometric Resource Report Resource Website 1+ mentions |
psychometric (RRID:SCR_024295) | software toolkit, software resource | Software R package for measurement theory, meta-analysis, reliability, item analysis, inter-rater reliability, classical utility, and correlation | psychometric theory, measurement theory, meta-analysis, reliability, item analysis, inter-rater reliability, classical utility, correlation | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-psychometric/ | SCR_024295 | Applied Psychometric Theory | 2026-08-15 11:28:14 | 1 | ||||||||
|
rniftilib Resource Report Resource Website |
rniftilib (RRID:SCR_024296) | software toolkit, software resource | Software R package provides R-interface to the NIfTI reference implementation the niftilib C-library. | R-interface, NIfTI reference implementation, niftilib C-library, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-rniftilib/ | SCR_024296 | 2026-08-15 11:28:14 | 0 | |||||||||
|
rook Resource Report Resource Website |
rook (RRID:SCR_024298) | software toolkit, software resource | Web server for R with documented API to interface between R and the server. The documentation contains the Rook specification and details for building and running Rook applications. | web server for R, building and running Rook applications, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-rook/ | SCR_024298 | 2026-08-15 11:28:20 | 0 | |||||||||
|
robustrankaggreg Resource Report Resource Website 1+ mentions |
robustrankaggreg (RRID:SCR_024299) | RRA | software toolkit, software resource | Software R package for aggregating ranked lists, especially lists of genes. RRA method uses a probabilistic model for aggregation that is robust to noise and also facilitates the calculation of significance probabilities for all the elements in the final ranking. | aggregating ranked lists, lists of genes aggregation, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-robustrankaggreg/ | SCR_024299 | Robust Rank Aggregation | 2026-08-15 11:28:14 | 4 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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