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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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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 | 2026-08-05 10:48:03 | 6 | |||||||||
|
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 | 2026-08-05 10:48:01 | 0 | ||||||||
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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 | 2026-08-05 10:48:01 | 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 | 2026-08-05 10:48:01 | 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 | 2026-08-05 10:48:02 | 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 | 2026-08-05 10:48:01 | 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 | 2026-08-05 10:48:03 | 217 | ||||||
|
dynamicTreeCut Resource Report Resource Website 1+ mentions |
dynamicTreeCut (RRID:SCR_024280) | software toolkit, software resource | Software R package contains methods for detection of clusters in hierarchical clustering dendrograms. | clusters detection, hierarchical clustering dendrograms, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_23803 | https://sources.debian.org/src/r-cran-dynamictreecut/ | SCR_024280 | r-cran-dynamictreecut, dynamicTreeCut: Methods for Detection of Clusters in Hierarchical Clustering Dendrograms | 2026-08-05 10:48:01 | 5 | |||||||
|
readucks Resource Report Resource Website |
readucks (RRID:SCR_024315) | software toolkit, software resource | Software package as Nanopore read de-multiplexer. | Nanopore, read de-multiplexer, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/readucks/ | SCR_024315 | 2026-08-05 10:48:01 | 0 | |||||||||
|
stringi Resource Report Resource Website |
stringi (RRID:SCR_024319) | software toolkit, software resource | Software R package as collection of character string/text/natural language processing tools for pattern searching, random string generation, case mapping, string transliteration, concatenation, sorting, padding, wrapping, Unicode normalisation, date time formatting and parsing. | pattern searching, random string generation, case mapping, string transliteration, concatenation, sorting, padding, wrapping, Unicode normalisation, date time formatting and parsing, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-stringi/ | SCR_024319 | 2026-08-05 10:48:03 | 0 | |||||||||
|
VARNA Resource Report Resource Website 1+ mentions |
VARNA (RRID:SCR_024373) | software toolkit, software resource | Software tool for automated drawing, visualization and annotation of secondary structure of RNA, designed as companion software for web servers and databases.Allows manual modification and structural annotation of resulting drawing using either interactive point and click approach, within web server or through command-line arguments. | Java, secondary structure of RNA drawing, secondary structure of RNA visualization, secondary structure of RNA annotation, | is listed by: Debian | PMID:19398448 | Free, Available for download, Freely available, | OMICS_04455 | https://sources.debian.org/src/varna/ | SCR_024373 | , Visualization Applet for RNA, varna | 2026-08-05 10:48:02 | 8 | ||||||
|
variation graph Resource Report Resource Website |
variation graph (RRID:SCR_024369) | vg | software toolkit, software resource | Software toolkit to improve read mapping by representing genetic variation in reference.Provides succinct encoding of sequences of many genomes. | read mapping, representing genetic variation in reference, encoding of sequences, genome | is listed by: Debian | PMID:30125266 | Free, Available for download, Freely available, | https://sources.debian.org/src/vg/ | SCR_024369 | variationgraph | 2026-08-05 10:48:02 | 0 | ||||||
|
Trinculo Resource Report Resource Website |
Trinculo (RRID:SCR_024384) | software toolkit, software resource | Software toolkit for carrying out genetic association for multi-catagory phenotypes. Implements multinomial and ordinal association incorporating covariates, conditional analysis, empirical and non-emperical priors and fine-mapping. | carrying out genetic association for multi-catagory phenotypes, incorporating covariates, conditional analysis, mapping | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/trinculo/ | SCR_024384 | trinculo | 2026-08-05 10:48:03 | 0 | ||||||||
|
rwave Resource Report Resource Website |
rwave (RRID:SCR_024302) | software toolkit, software resource | Software R package provides environment for Time-Frequency analysis of 1-D signals. | Time-Frequency analysis of 1-D signals, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-rwave/ | SCR_024302 | 2026-08-05 10:48:03 | 0 | |||||||||
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umis Resource Report Resource Website 1+ mentions |
umis (RRID:SCR_024381) | software toolkit, software resource | Software tools for estimating expression in RNA-Seq data which performs sequencing of end tags of transcript, and incorporate molecular tags to correct for amplification bias. | estimating expression in RNA-Seq data, sequencing of end tags of transcript, incorporate molecular tags, correct for amplification bias, | is listed by: Debian | PMID:28263961 | Free, Available for download, Freely available, | OMICS_12783 | https://sources.debian.org/src/umis/ | SCR_024381 | 2026-08-05 10:48:02 | 2 | |||||||
|
sra-toolkit Resource Report Resource Website 100+ mentions |
sra-toolkit (RRID:SCR_024350) | software toolkit, software resource | Software collection of tools and libraries for using data in the INSDC Sequence Read Archives.Used for long term storage of the next-generation sequence traces. | using data in the INSDC Sequence Read Archives, long term storage of the next-generation sequence traces, | is listed by: Debian | PMID:19906712 | Free, Available for download, Freely available, | OMICS_03771 | https://sources.debian.org/src/sra-toolkit/ | SCR_024350 | NCBI SRA Toolkit | 2026-08-05 10:48:03 | 171 | ||||||
|
sumaclust Resource Report Resource Website 1+ mentions |
sumaclust (RRID:SCR_024352) | software toolkit, software library, software resource | Software tool aims to cluster sequences in a way that is fast and exact at the same time. | cluster sequences, fast and exact clustering, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_19112 | https://sources.debian.org/src/sumaclust/ | SCR_024352 | 2026-08-05 10:48:02 | 1 | ||||||||
|
libswiss-perl Resource Report Resource Website |
libswiss-perl (RRID:SCR_024356) | software toolkit, software library, software resource | Software object oriented Perl library to handle Swiss-Prot entries | object oriented Perl library, handle Swiss-Prot entries, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/libswiss-perl/ | SCR_024356 | 2026-08-05 10:48:03 | 0 | |||||||||
|
VolPack Resource Report Resource Website |
VolPack (RRID:SCR_024367) | software toolkit, software library, software resource | Portable software library for volume rendering. | library for volume rendering, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/libvolpack1-dev/ | SCR_024367 | volpack | 2026-08-05 10:48:03 | 0 | ||||||||
|
rSNP Guide Resource Report Resource Website 1+ mentions |
rSNP Guide (RRID:SCR_000087) | data or information resource, database | A system of databases which stores information on the influence of mutations in regulatory gene regions . This tool helps recognize protein binding sites that are being altered by mutation. It has four cross-linked sub databases that focus on specific aspects including: (1) the effect of single nucleotide mutations in regulatory gene regions and their interaction with nuclear proteins; (2) references to original publications on the subject; (3) the experimental details of these publications; and (4) the protocols of these experiments. This resource is aimed at providing information to further research on the influence of specific sequence alterations on disease susceptibility, drug resistance and healthcare. | database, single nucleotide mutations, RNA, DNA, nuclear proteins, protein binding sites, drug resistance, disease susceptibility, health care, regulatory gene regions, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: Siberian Branch of the Russian Academy of Sciences; Novosibirsk; Russia |
Open Source | nif-0000-03428, biotools:rsnp_guide | https://bio.tools/rsnp_guide | SCR_000087 | rSNP Guide | 2026-08-05 10:43:06 | 1 |
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