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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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FastANI Resource Report Resource Website 100+ mentions |
FastANI (RRID:SCR_021091) | data analytics software, software resource, software application | Software tool for fast alignment free computation of whole genome Average Nucleotide Identity . Supports pairwise comparison of both complete and draft genome assemblies. to calcualte the average nucleotide identity (ANI) between your samples. | whole genome, Average Nucleotide Identity, ANI, alignment identity estimates, whole genome, similarity estimation | Free, Available for download, Freely available | SCR_021091 | Fast Whole Genome Similarity Estimation | 2026-08-12 10:52:28 | 336 | ||||||||||
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Color Oracle Resource Report Resource Website 1+ mentions |
Color Oracle (RRID:SCR_018400) | software resource, software application | Software tool as free color blindness simulator for Windows, Mac and Linux. Design for Color Impaired. Takes guesswork out of designing for color blindness by showing you in real time what people with common color vision impairments will see.Color Oracle is open source, available on GitHub for Mac and Windows/Java. | Color blindness simulator, color imapried, color blind, color vision impairement | Free, Available for download, Freely available | https://github.com/nvkelso/color-oracle, https://github.com/nvkelso/color-oracle-java | SCR_018400 | 2026-08-12 10:52:07 | 8 | ||||||||||
|
OmicsGAN Resource Report Resource Website 1+ mentions |
OmicsGAN (RRID:SCR_022976) | software resource, software application | Software generative adversarial network to integrate two omics data and their interaction network to generate one synthetic data corresponding to each omics profile that can result in better phenotype prediction. Used to capture information from interaction network as well as two omics datasets and fuse them to generate synthetic data with better predictive signals. | integrate two omics data, interaction network, generate one synthetic data corresponding to each omics profile, phenotype prediction | NSF III1755761; NIGMS R01GM113952; NIDA DK097771 |
PMID:34415323 | Free, Available for download, Freely available | SCR_022976 | Omics Generative Adversarial Network | 2026-08-12 10:52:58 | 1 | ||||||||
|
Bio-Chado-Schema Resource Report Resource Website |
Bio-Chado-Schema (RRID:SCR_024059) | software resource, software application | Standard object-relational mapping layer for use with GMOD Chado database schema. This layer is implemented with DBIx::Class, generated with the help of DBIx::Class::Schema::Loader module. | Standard object-relational mapping layer, GMOD Chado database schema, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/libbio-chado-schema-perl/ | SCR_024059 | libbio-chado-schema-perl, Bio-Chado-Schema - A standard DBIx-Class layer for the Chado database schema | 2026-08-12 10:53:09 | 0 | ||||||||
|
VOSviewer Resource Report Resource Website 100+ mentions |
VOSviewer (RRID:SCR_023516) | software resource, software application | Software tool for constructing and visualizing bibliometric networks. These networks may for instance include journals, researchers, or individual publications, and they can be constructed based on citation, bibliographic coupling, co-citation, or co-authorship relations. Offers text mining functionality that can be used to construct and visualize co-occurrence networks of important terms extracted from body of scientific literature. | constructing and visualizing bibliometric networks, text mining functionality, co-occurrence networks, | has parent organization: Leiden University; Leiden; Netherlands | PMID:36589296 | Free, Available for download, Freely available | SCR_023516 | VOSviewer version 1.6.19 | 2026-08-12 10:53:03 | 293 | ||||||||
|
pyomo Resource Report Resource Website 1+ mentions |
pyomo (RRID:SCR_024188) | software resource, software application | Open source Python-based optimization modeling language with diverse set of optimization capabilities. | Python, optimization modeling language, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/pyomo/ | SCR_024188 | 2026-08-12 10:53:11 | 5 | |||||||||
|
bam readcount Resource Report Resource Website 10+ mentions |
bam readcount (RRID:SCR_023653) | software resource, software application | Software tool that runs on BAM or CRAM file and generates low level information about sequencing data at specific nucleotide positions. Its outputs include observed bases, readcounts, summarized mapping and base qualities, strandedness information, mismatch counts, and position within the reads. | BAM file, CRAM file, sequencing data, nucleotide positions, | NCI R50CA211782; NCI P01CA101937; NCI K22CA188163; NCI 1U01CA209936; NCI U24CA237719; Edward P. Evans Foundation ; NHGRI R00 HG007940 |
PMID:34341766 | Free, Available for download, Freely available | SCR_023653 | bam-readcount | 2026-08-12 10:52:50 | 38 | ||||||||
|
AI-FANN Resource Report Resource Website |
AI-FANN (RRID:SCR_024060) | software resource, software application | Software Perl wrapper for the Fast Artificial Neural Network library | Perl wrapper, Fast Artificial Neural Network library, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/libai-fann-perl/ | SCR_024060 | AI-FANN - Perl wrapper for the Fast Artificial Neural Network library, libai-fann-perl | 2026-08-12 10:53:02 | 0 | ||||||||
|
Bio-Coordinate Resource Report Resource Website |
Bio-Coordinate (RRID:SCR_024063) | software resource, software application | Software application used for working with various biological coordinate systems. See Bio::Coordinate::Collection and Bio::Collection::Pair for examples. | biological coordinate systems, | is listed by: Debian | https://sources.debian.org/src/libbio-coordinate-perl/ | SCR_024063 | Bio-Coordinate - Modules for working with biological coordinates, libbio-coordinate-perl | 2026-08-12 10:53:09 | 0 | |||||||||
|
Transnetyx Colony Management Resource Report Resource Website 1+ mentions |
Transnetyx Colony Management (RRID:SCR_023922) | software resource, software application | Software for mouse colony management. Streamlined software for simplified colony management. | Transnetyx, Inc., mouse colony management, simplified colony management, colony management, | Restricted | SCR_023922 | 2026-08-12 10:52:54 | 1 | |||||||||||
|
mONiTor Resource Report Resource Website |
mONiTor (RRID:SCR_023921) | software resource, software application | Software tool monitors metrics available in sequencer, state of the computer to which the sequencer is connected, and the contents of the fast5 and fastq files. Real-time monitoring of Oxford Nanopore Technology sequencing run. Used for monitoring nanopore sequencing process. | Oxford Nanopore Technology, Oxford Nanopore Technology sequencing, monitoring nanopore sequencing process, monitoring process, nanopore sequencing process, nanopore sequencing, | Free, Available for download, Freely available | SCR_023921 | 2026-08-12 10:53:00 | 0 | |||||||||||
|
Sargasso Resource Report Resource Website 1+ mentions |
Sargasso (RRID:SCR_023489) | software resource, software application | Software Python tool to disambiguate mixed species RNA-seq reads according to their species of origin. | disambiguate mixed species RNA-seq reads, mixed species RNA-seq reads, mixed species, RNA-seq reads | Free, Available for download, Freely available | https://zenodo.org/record/260123#.ZEG6ynbMK3B | SCR_023489 | 2026-08-12 10:53:02 | 1 | ||||||||||
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Ginkgo CADx Resource Report Resource Website |
Ginkgo CADx (RRID:SCR_024031) | software resource, software application | Software advanced DICOM viewer and dicomizer that can also be used to convert png, jpeg, bmp, pdf, tiff to DICOM files. | Digital Imaging and Communication In Medicine, DICOM viewer, dicomizer, convert files, png, jpeg, bmp, pdf, tiff, convert to DICOM files, | is listed by: Debian | Free, Freely available | https://sources.debian.org/src/ginkgocadx/, https://github.com/gerddie/ginkgocadx | SCR_024031 | ginkgocadx | 2026-08-12 10:53:08 | 0 | ||||||||
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HTSJDK Resource Report Resource Website 1+ mentions |
HTSJDK (RRID:SCR_024036) | software resource, software application | Software implementation of unified Java library for accessing common file formats, such as SAM and VCF, used for high-throughput sequencing data. There are also an number of useful utilities for manipulating HTS data. | accessing common file formats, SAM, VCF, manipulating HTS data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/htsjdk/, https://github.com/samtools/htsjdk | SCR_024036 | htsjdk | 2026-08-12 10:52:56 | 4 | ||||||||
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InsPecT Resource Report Resource Website 1+ mentions |
InsPecT (RRID:SCR_024038) | software resource, software application | Software tool to addresses several algorithmic problems in order to identify modified proteins.Software MS/MS database search tool specifically designed to address two crucial needs of the proteomics comminuty: post-translational modification identification and search speed. | addresses algorithmic problems, identify modified proteins, post-translational modification identification, | is listed by: Debian | PMID:16013882 | Free, Available for download, Freely available, | OMICS_02397 | https://sources.debian.org/src/inspect/ | SCR_024038 | Inspect, inspect | 2026-08-12 10:53:02 | 1 | ||||||
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Brainreg Resource Report Resource Website 1+ mentions |
Brainreg (RRID:SCR_023858) | software resource, software application | Software Python based tool that registers the template brain (e.g. from the Allen Reference Atlas) to the sample image.Automated 3D brain registration with support for multiple species and atlases. | Allen Mouse Brain Reference Atlas, Allen Human Brain Atlas, Allen Reference Atlas, template brain registration, sample image, | is related to: Allen Institute for Brain Science | Free, Available for download, Freely available | SCR_023858 | 2026-08-12 10:52:54 | 6 | ||||||||||
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Bibus Resource Report Resource Website |
Bibus (RRID:SCR_023974) | software resource, software application | Bibliographic and reference management software. Allows to search, edit, and sort bibliographic records. | Bibliographic and reference management, bibliographic records, search bibliographic records, edit bibliographic records, sort bibliographic records, | is listed by: Debian | Free, Available for download, Freely available | https://sources.debian.org/src/bibus/ | SCR_023974 | bibus | 2026-08-12 10:53:07 | 0 | ||||||||
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Kaptive Resource Report Resource Website 10+ mentions |
Kaptive (RRID:SCR_024046) | software resource, software application | Software tool to report information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies. | report information, surface polysaccharide loci, genome assemblies, | is listed by: Debian | PMID:28348840 | Free, Available for download, Freely available, | OMICS_27932 | https://sources.debian.org/src/kaptive/ | SCR_024046 | kaptive | 2026-08-12 10:53:08 | 18 | ||||||
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JabRef Resource Report Resource Website 1+ mentions |
JabRef (RRID:SCR_024047) | software resource, software application | Open source, software cross platform citation and reference management tool.Helps to collect and organize sources, find the paper, discover the latest research. | citation and reference, management tool, collect and organize sources, find the paper, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/jabref-plugin-oo/, https://github.com/JabRef/jabref | SCR_024047 | jabref, JabRef Bibliography Management | 2026-08-12 10:53:02 | 4 | ||||||||
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KBibTeX Resource Report Resource Website |
KBibTeX (RRID:SCR_024048) | software resource, software application | Software tool as bibliography editor for KDE. Used in conjunction with Kile. BibTeX editor for KDE. KBibTeX's primary file format is BibTeX as known from LaTeX, but other formats such as RIS, PDF, or RTF can be imported and exported. | bibliography editor for KDE, bibliography editor, BibTeX editor for KDE, | is listed by: Debian | Restricted | https://sources.debian.org/src/kbibtex/ | SCR_024048 | kbibtex | 2026-08-12 10:52:56 | 0 |
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