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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
hms Resource Report Resource Website |
hms (RRID:SCR_024294) | software toolkit, software resource | Software R package implements S3 class for storing and formatting time-of-day values, based on the 'difftime' class. | storing and formatting time-of-day values, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-hms/ | SCR_024294 | 2026-08-09 09:08:51 | 0 | |||||||||
|
Thermo Scientific Maps Software Resource Report Resource Website 1+ mentions |
Thermo Scientific Maps Software (RRID:SCR_024446) | software toolkit, software resource | Correlative electron microscopy and cross-platform imaging automation software. Imaging and correlative workflow software suite compatible with full line of Thermo Scientific SEM, DualBeam (FIB SEM) and TEM platforms. | Correlative electron microscopy, cross-platform imaging automation, imaging and correlative workflow, | Restricted | SCR_024446 | Maps Software | 2026-08-09 09:09:03 | 5 | ||||||||||
|
sambamba Resource Report Resource Website 50+ mentions |
sambamba (RRID:SCR_024328) | software toolkit, software resource | Software tools for working with SAM/BAM data | working with SAM/BAM data, | is listed by: Debian | PMID:25697820 | Free, Available for download, Freely available, | OMICS_07586 | https://sources.debian.org/src/sambamba/ | SCR_024328 | 2026-08-09 09:08:26 | 59 | |||||||
|
seq-seq-pan Resource Report Resource Website |
seq-seq-pan (RRID:SCR_024343) | software toolkit, software resource | Software workflow for SEQuential alignment of SEQuences to build PAN-genome data structure and whole-genome-alignment. | SEQuential alignment, SEQuences, build PAN-genome data structure, | is listed by: Debian | PMID:29334898 | Free, Available for download, Freely available, | https://sources.debian.org/src/seq-seq-pan/ | SCR_024343 | 2026-08-09 09:08:52 | 0 | ||||||||
|
SIMA Resource Report Resource Website 1+ mentions |
SIMA (RRID:SCR_024466) | software toolkit, software resource | Software Python package for analysis of dynamic fluorescence microscopy data. | fluorescence microscopy data, microscopy data analysis, | Free, Available for download, Freely available | SCR_024466 | 2026-08-09 09:09:04 | 2 | |||||||||||
|
microbiome Resource Report Resource Website 10+ mentions |
microbiome (RRID:SCR_024699) | software toolkit, software resource | Software R package for use in microbiome analysis. Used to provide comprehensive collection of tools and tutorials, with particular focus on amplicon sequencing data. | amplicon sequencing data, microbiome analysis, | is listed by: Bioconductor | Free, Available for download, Freely available | https://microbiome.github.io/tutorials/, https://github.com/microbiome/microbiome/, | SCR_024699 | 2026-08-09 09:09:05 | 22 | |||||||||
|
genetics Resource Report Resource Website 1+ mentions |
genetics (RRID:SCR_024279) | software toolkit, software resource | Software R package for handling genetic data. Includes classes to represent genotypes and haplotypes at single markers up to multiple markers on multiple chromosomes. Function include allele frequencies, flagging homo/heterozygotes, flagging carriers of certain alleles, estimating and testing for Hardy-Weinberg disequilibrium, estimating and testing for linkage disequilibrium. | handling genetic data, allele frequencies, flagging homo/heterozygotes, flagging carriers of certain alleles, estimating and testing for Hardy-Weinberg disequilibrium, estimating and testing for linkage disequilibrium, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-genetics/ | SCR_024279 | 2026-08-09 09:08:50 | 3 | |||||||||
|
scCustomize Resource Report Resource Website 100+ mentions |
scCustomize (RRID:SCR_024675) | software toolkit, software resource | Software R package for custom visualizations and functions for streamlined analyses of single cell sequencing. | custom visualizations, single cell sequencing, single cell sequencing analysis, | is listed by: CRAN | Free, Available for download, Freely available | https://CRAN.R-project.org/package=scCustomize, https://github.com/samuel-marsh/scCustomize, https://doi.org/10.5281/zenodo.5706430 | SCR_024675 | 2026-08-09 09:08:58 | 100 | |||||||||
|
readseq Resource Report Resource Website 1+ mentions |
readseq (RRID:SCR_024313) | software toolkit, software resource | Software package as Java based common sequence file format reader and sequence file manipulation. | Java, common sequence file format reader, sequence file manipulation, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/rdp-readseq/ | SCR_024313 | 2026-08-09 09:08:26 | 6 | |||||||||
|
rsvd Resource Report Resource Website |
rsvd (RRID:SCR_024303) | software toolkit, software resource | Software R package used to compute near optimal low-rank singular value decomposition of massive data sets with high accuracy. Provides several randomized matrix algorithms such as randomized singular value decomposition (rsvd), randomized principal component analysis (rpca), randomized robust principal component analysis (rrpca), randomized interpolative decomposition (rid), and the randomized CUR decomposition (rcur). In addition several plot functions are provided. | randomized singular value decomposition, singular value decomposition, compute optimal low-rank singular value decomposition, massive data sets, | is listed by: Debian | DOI:10.18637/jss.v089.i11 | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-rsvd/ | SCR_024303 | randomized singular value decomposition | 2026-08-09 09:08:51 | 0 | |||||||
|
riskRegression Resource Report Resource Website 10+ mentions |
riskRegression (RRID:SCR_024424) | software toolkit, software resource | Software R package provides risk regression models and prediction scores for survival analysis with competing risks. | risk prediction, risk regression models, prediction scores, survival analysis, competing risks, | is listed by: SoftCite | Free, Available for download, Freely available | https://github.com/tagteam/riskRegression | SCR_024424 | 2026-08-09 09:08:54 | 15 | |||||||||
|
surveillance Resource Report Resource Website |
surveillance (RRID:SCR_024304) | software toolkit, software resource | Software R package for modeling and monitoring of time series of counts, proportions and categorical data, as well as for modeling of continuous-time point processes of epidemic phenomena. | modeling and monitoring of time series of counts, proportions and categorical data, modeling of continuous-time point processes, | is listed by: Debian | DOI:10.1007/s00180-007-0074-8 | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-surveillance/ | SCR_024304 | 2026-08-09 09:08:26 | 0 | ||||||||
|
tsne Resource Report Resource Website 1+ mentions |
tsne (RRID:SCR_024305) | software toolkit, software resource | Softare R package as implementation of the t-SNE algorithm. | t-SNE algorithm implementation, R | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-tsne/ | SCR_024305 | 2026-08-09 09:09:02 | 6 | |||||||||
|
RapGreen Resource Report Resource Website 1+ mentions |
RapGreen (RRID:SCR_024426) | PMID:34568824 | software toolkit, software resource | Software phylogenetic tree analysis package. Phylogenetic tree management, exploration and display package. | Phylogenetic tree management, phylogenetic tree analysis, | is listed by: SoftCite | Free, Available for download, Freely available | https://github.com/SouthGreenPlatform/rap-green/wiki, http://southgreenplatform.github.io/rap-green/ | SCR_024426 | 2026-08-09 09:09:03 | 1 | ||||||||
|
rotl Resource Report Resource Website |
rotl (RRID:SCR_024306) | software toolkit, software resource | Software R package provides interface to the 'Open Tree of Life' API to retrieve phylogenetic trees, information about studies used to assemble the synthetic tree, and utilities to match taxonomic names to 'Open Tree identifiers'. The 'Open Tree of Life' aims at assembling comprehensive phylogenetic tree for all named species. | interface to 'Open Tree of Life' API, retrieve phylogenetic trees, retrieve information about studies used to assemble synthetic tree, retrieve utilities to match taxonomic names, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_28401 | https://sources.debian.org/src/r-cran-rotl/ | SCR_024306 | 2026-08-09 09:08:51 | 0 | ||||||||
|
snowfall Resource Report Resource Website |
snowfall (RRID:SCR_024309) | software toolkit, software resource | Software R package usability wrapper around snow for easier development of parallel R programs. This package offers e.g. extended error checks, and additional functions. All functions work in sequential mode if no cluster is present or wished. Package is also designed as connector to the cluster management tool sfCluster, but can also used without it. | usability wrapper around snow, development of parallel R programs, extended error checks, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-snowfall/ | SCR_024309 | 2026-08-09 09:08:51 | 0 | |||||||||
|
parmigene Resource Report Resource Website 1+ mentions |
parmigene (RRID:SCR_024285) | software toolkit, software resource | Software R package for parallel estimation of mutual information based on entropy estimates from k-nearest neighbors distances and algorithms for reconstruction of gene regulatory networks. | parallel estimation, mutual information, entropy estimates from k-nearest neighbors distances, reconstruction of gene regulatory networks, | is listed by: Debian | PMID:21531770 | Free, Available for download, Freely available, | OMICS_16887 | https://sources.debian.org/src/r-cran-parmigene/ | SCR_024285 | Parallel Mutual Information Estimation for Gene Network Reconstruction | 2026-08-09 09:08:51 | 1 | ||||||
|
pcapp Resource Report Resource Website 1+ mentions |
pcapp (RRID:SCR_024287) | software toolkit, software resource | Software R package provides functions for principal component analysis by projection pursuit. | principal component analysis, projection pursuit, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-pcapp/ | SCR_024287 | 2026-08-09 09:09:02 | 1 | |||||||||
|
psychotree Resource Report Resource Website |
psychotree (RRID:SCR_024288) | software toolkit, software resource | Software R package for recursive partitioning based on psychometric models, employing general MOB algorithm to obtain Bradley-Terry trees, Rasch trees, rating scale and partial credit trees, and MPT trees, trees for 1PL, 2PL, 3PL and 4PL models and generalized partial credit models. | recursive partitioning based on psychometric models, recursive partitioning, psychometric models, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-psychotree/ | SCR_024288 | 2026-08-09 09:08:51 | 0 | |||||||||
|
saint Resource Report Resource Website 100+ mentions |
saint (RRID:SCR_024324) | SAINT | software toolkit, software resource | Software package for assigning confidence scores to protein-protein interactions based on quantitative proteomics data in AP-MS experiments. | assigning confidence scores, protein-protein interactions, quantitative proteomics data, AP-MS experiments, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_16243 | https://sources.debian.org/src/saint/ | SCR_024324 | Significance Analysis of INTeractome | 2026-08-09 09:08:52 | 231 |
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