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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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ImageMagick Resource Report Resource Website 100+ mentions |
ImageMagick (RRID:SCR_014491) | software resource, software application, image processing software, data processing software | Software suite for creating, editing, composing, and converting bitmap images. It can read and write images in over 200 formats including PNG, JPEG, JPEG-2000, GIF, TIFF, DPX, EXR, WebP, Postscript, PDF, and SVG. The user can use this software to resize, flip, mirror, rotate, distort, shear and transform images, adjust image colors, apply various special effects, or draw text, lines, polygons, ellipses and Bézier curves. | image editing, image processing software, image analysis software, bitmap, adjust image colors, bezier curves | is listed by: Debian | Restricted | https://sources.debian.org/src/imagemagick/ | SCR_014491 | 2026-08-01 12:05:13 | 133 | |||||||||
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pubatlas.org Resource Report Resource Website 1+ mentions |
pubatlas.org (RRID:SCR_014538) | data visualization software, software application, data processing software, software resource | A program that searches PubMed to generate a heat map using a user's search terms. It also allows you to see over the years how many publications there are with the user's search term(s). | atlas, pubmed, heat map, search term, data visualization | PMID:21347177 | SCR_014538 | PubAtlas: Association Explorer, PubAtlas | 2026-08-01 12:05:13 | 4 | ||||||||||
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NIRStar Resource Report Resource Website 50+ mentions |
NIRStar (RRID:SCR_014540) | data acquisition software, software application, data processing software, software resource | Commercial software tool designed to function as a multiplatform instrument controlling environment for NIRx products. Its features include the ability to run full or partial sensing configurations, montage views and viewing options, and a real-time system status reporting display. | multiplatform, instrument controlling environment, investigational, paradigm, imaging system, data acquisition software | has parent organization: NIRx NIRS Neuroimaging | Commercially available | SCR_014540 | NIRStar - NIRS Acquisition Software by NIRx, NIRStar, NIRS Acquisition Software by NIRx | 2026-08-01 12:05:13 | 53 | |||||||||
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Preclinical Data Forum Network Resource Report Resource Website 1+ mentions |
Preclinical Data Forum Network (RRID:SCR_014545) | discussion, narrative resource, data or information resource, forum | A forum for preclinical data sharing and interpretation to enhance its utility for clinical research and development. The forum allows researchers to communicate and collaborate on modern preclinical issues and data sharing. | forum, network, preclinical, research and development, data sharing | has parent organization: ECNP | DOI:10.1016/j.euroneuro.2015.05.011 | Available to the research community | SCR_014545 | Preclinical Data Forum Network of the ECNP, Preclinical Data Forum Network of the European College of Neuropsychopharmacology, European College of Neuropsychopharmacology - Preclinical Data Forum Network | 2026-08-01 12:05:13 | 1 | ||||||||
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Cell Line Authentication Testing Resource Report Resource Website 1+ mentions |
Cell Line Authentication Testing (RRID:SCR_014504) | CLA | quality control testing; authentication testing | A material analysis service of the commercial organization Genetica DNA Laboratories which provides authentication of human cancer cell lines, stem cell lines and xenografts utilizing STR DNA technology. | str profiling, cell line authentication, genetica, cancer cell line, stem cell line, xenograft | is related to: Genetica DNA Laboratories | PMID:20614197 | Available to the research community, Commercial | SCR_014504 | Genetica DNA Laboratories Cell Line Authentication, cell line identification testing; cell authentication | 2026-08-01 12:05:13 | 4 | |||||||
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International Geo Sample Number Resource Report Resource Website 1+ mentions |
International Geo Sample Number (RRID:SCR_014505) | IGSN | data or information resource, international standard specification, identifier resolution, narrative resource, service resource, standard specification, production service resource | A persistent unique identifier for samples and specimens collected from the natural environment. IGSNs are created by the user and are case sensitive. They should be concise, machine readable, and non-derivable to ensure originality. IGSNs were created and are organized by the IGSN e.V., whose goal is to implement and promote standard methods for locating, identifying, and citing physical samples with confidence by operating an international IGSN registration service with a distributed infrastructure for use by and benefit to its members. | identifier, natural environment, geology, unique, identifying system | Available to participating members, IGSNs must be tagged in manuscripts | http://igsn.github.io http://igsn.github.io/syntax | SCR_014505 | International GeoSample Number, International Geo Sample Number (IGSN) | 2026-08-01 12:05:03 | 2 | ||||||||
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I-TASSER Resource Report Resource Website 1000+ mentions |
I-TASSER (RRID:SCR_014627) | data processing software, data analysis software, software application, software resource | Web server as integrated platform for automated protein structure and function prediction. Used for protein 3D structure prediction. Resource for automated protein structure prediction and structure-based function annotation. | Automated prediction, protein structure prediction, protein function prediction, protein 3D structure, amino acid sequence, alignment, simulation, 3D atomic model, protein, bio.tools |
is listed by: bio.tools is listed by: Debian is listed by: SoftCite has parent organization: University of Michigan; Ann Arbor; USA has parent organization: University of Kansas; Kansas; USA |
NIGMS GM083107; NIGMS GM084222 |
DOI:10.1186/1471-2105-9-40 DOI:10.1093/nar/gkv342 PMID:20360767 PMID:18215316 |
Free, Available for download, Freely available | biotools:i-tasser, SCR_018803 | https://bio.tools/i-tasser | SCR_014627 | Iterative Threading Assembly Refinement, Iterative Threading ASSEmbly Refinement | 2026-08-01 12:05:15 | 3702 | |||||
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GenStat Resource Report Resource Website 1000+ mentions |
GenStat (RRID:SCR_014595) | software resource | A statistical software which can be used for basic statistics, experimental design, sample size calculations, and analysis of linear mixed models, time series, and spatial analysis. | statistics, statistical, experimental design, linear mixed model, time series, spatial, size calculation, sample size | SCR_014595 | 2026-08-01 12:05:05 | 1705 | ||||||||||||
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7500 Real-Time PCR Software Resource Report Resource Website 10+ mentions |
7500 Real-Time PCR Software (RRID:SCR_014596) | data acquisition software, software application, data processing software, software resource | A software used to control and operate the Applied Biosystems 7500 Real-Time PCR system. | pcr, applied biosystem, control, operate, hardware management software, systems management software | Commercial, Paired with a PCR system | SCR_014596 | Applied Biosystems 7500 Real-Time PCR Software, 7500 Real Time PCR Software | 2026-08-01 12:05:14 | 43 | ||||||||||
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Thermo Xcalibur Resource Report Resource Website 5000+ mentions |
Thermo Xcalibur (RRID:SCR_014593) | data acquisition software, software application, data processing software, software resource | A software which acquires and processes data sets, primarily through the Xcalibur system. | data acquisition software, thermo fisher, xcalibur, excalibur, data set | SCR_014593 | 2026-08-01 12:05:14 | 8162 | ||||||||||||
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Cufflinks Resource Report Resource Website 5000+ mentions |
Cufflinks (RRID:SCR_014597) | data analysis software, software application, software resource, sequence analysis software, data processing software | Software tool for transcriptome assembly and differential expression analysis for RNA-Seq. Includes script called cuffmerge that can be used to merge together several Cufflinks assemblies. It also handles running Cuffcompare as well as automatically filtering a number of transfrags that are likely to be artifacts. If the researcher has a reference GTF file, the researcher can provide it to the script to more effectively merge novel isoforms and maximize overall assembly quality. | transcriptome, rna-seq, rna seq, cuffmerge, cufflink, cuffcompare, transfrags, artifacts, gtf file, transcriptome assembly, expression analysis, bio.tools, bio.tools |
is listed by: Debian is listed by: bio.tools is listed by: OMICtools is listed by: SoftCite works with: GeneScissors is hosted by: GitHub |
DOI:10.1038/nbt.1621 | Acknowledgement requested, Source code available on GitHub | biotools:cufflinks, OMICS_01304, SCR_013307 | https://github.com/cole-trapnell-lab/cufflinks, https://bio.tools/cufflinks, https://sources.debian.org/src/cufflinks/ | SCR_014597 | 2026-08-01 12:05:05 | 8838 | |||||||
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SigmaGel Software Resource Report Resource Website 100+ mentions |
SigmaGel Software (RRID:SCR_014598) | data processing software, data analysis software, software application, software resource | Gel analysis software which can be used on a PC with TWAIN-compatible scanners without specialty equipment. Users scan or load an image which can then be calibrated. SigmaGel allows users to make lane measurements, spot measurements, and molecular weight measurements. After data analysis was completed, users can print or copy and paste data and images. | gel, gel analysis software, twain, data analysis | Available from SPSS Software | SCR_014598 | SigmaGel | 2026-08-01 12:05:05 | 151 | ||||||||||
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Stopwatch+ Resource Report Resource Website 10+ mentions |
Stopwatch+ (RRID:SCR_014591) | data acquisition software, software application, data processing software, software resource | A software which tracks the number of occurrences and duration of up to 16 defined events. The user can group events together so that turning on one event in a group will automatically turn off other active events in the group. Sessions can end after a fixed length of time, or the sessions can be ended manually, At the end of the session, the data can be saved in a comma-delimited file which can be easily imported into a spreadsheet application. | software, track events, occurences, auto-end, manual end, comma-delimited, spreadsheet | Open Source | SCR_014591 | Stopwatch plus, Stopwatch Plus, Stopwatch-plus | 2026-08-01 12:05:05 | 20 | ||||||||||
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StatPlus Mac Resource Report Resource Website 100+ mentions |
StatPlus Mac (RRID:SCR_014635) | data processing software, data analysis software, software application, software resource | A statistical data analysis tool that works with Microsoft Excel and is designed especially for use in IOS systems. Tutorials and examples are provided within the program. | statistics, mac, ios, excel, data analysis, software | Available for download | SCR_014635 | StatPlus | 2026-08-01 12:05:06 | 187 | ||||||||||
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CopyCaller Resource Report Resource Website 100+ mentions |
CopyCaller (RRID:SCR_014486) | data processing software, data analysis software, software application, software resource | A software for analyzing real-time PCR data and quantifying DNA targets. It can perform copy number analysis, report confidence in copy number, display data in table and graphic format, change analysis parameters, and view data analysis information for multiple experiments at once. | data analysis, real-time pcr data analysis, real-time pcr, pcr, dna target | SCR_014486 | 2026-08-01 12:05:03 | 336 | ||||||||||||
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Minitab Resource Report Resource Website 5000+ mentions |
Minitab (RRID:SCR_014483) | data processing software, data analysis software, software application, software resource | A statistical software package that allows the user to import data, create graphs, and perform statistical analysis. It can perform basic statistical tests like descriptive statistics, hypothesis tests, confidence intervals, and normality tests as well as regression and ANOVA and quality assessment. | data analysis, statistical analysis, hypothesis, confidence, descriptive | is listed by: SoftCite | SCR_014483 | 2026-08-01 12:05:03 | 5778 | |||||||||||
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BD CellQuest Pro Resource Report Resource Website 1000+ mentions |
BD CellQuest Pro (RRID:SCR_014489) | data acquisition software, software application, data processing software, software resource | A software for acquiring and analyzing flow cytometry data. The user can create plots with elements like regions, gates, statistics, markers, and annotated text. The software can also be used for batch analysis or quality control of analysis. Results can be exported and saved., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | data analysis, flow cytometry data acquisition and analysis | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014489 | 2026-08-01 12:05:03 | 3938 | |||||||||||
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BayesTraits Resource Report Resource Website 100+ mentions |
BayesTraits (RRID:SCR_014487) | data processing software, data analysis software, software application, software resource | A computer package for performing analyses of trait evolution among groups of species for which a phylogeny or sample of phylogenies is available. It incorporates earlier programs including Multistate, Discrete and Continuous. BayesTraits can be applied to the analysis of traits that adopt a discrete number of states, or to the analysis of continuously varying traits. Hypotheses can be tested about models of evolution, ancestral states and correlations among pairs of traits., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | data analysis software, evolution, phylogeny, evolutionary model | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014487 | 2026-08-01 12:05:12 | 308 | |||||||||||
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Clone Manager Software Resource Report Resource Website 10+ mentions |
Clone Manager Software (RRID:SCR_014521) | workflow software, software application, data processing software, software resource, simulation software | A software system to assist with cloning simulation, enzyme operations, and graphic map drawing. Clone Manager can also be used as a way to view or edit sequence files, find open reading frames, translate genes, or find genes or text in files. Clone Manager Professional is an upgraded version of Clone Manager Basic., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | workflow software, simulation software, enzyme, clone, cloning simulation, graphic map, sequence, view, edit | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014521 | 2026-08-01 12:05:04 | 48 | |||||||||||
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Clickjoint Resource Report Resource Website 1+ mentions |
Clickjoint (RRID:SCR_014482) | data processing software, data analysis software, software application, software resource | A software for analyzing animal movement on videos and images. The user can define the animal's joints so the software can analyze using a tracking algorithm. | image analysis, tracking algorithm, animal movement, animal joint | SCR_014482 | 2026-08-01 12:05:12 | 3 |
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