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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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INCell Developer Toolbox Resource Report Resource Website 10+ mentions |
INCell Developer Toolbox (RRID:SCR_015790) | data processing software, image analysis software, software application, software resource | Image analysis software for developing new cellular assay analysis routines. This software provides a selection of advanced segmentation, pre-processing and post-postprocessing tools. | INCell, HCA, cellular assay, advanced segmentation, image analysis, cellular imaging | Commercially available, Available for purchase | SCR_015790 | IN Cell Developer Toolbox v1.6, IN Cell Developer Toolbox | 2026-08-21 12:40:58 | 30 | ||||||||||
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ProCon - PROteomics CONversion Resource Report Resource Website 1+ mentions |
ProCon - PROteomics CONversion (RRID:SCR_016363) | ProCon | data processing software, software application, software resource | Java based conversion tool for conversion of data from Proteomics files or a LIMS (Laboratory Information Management System) database into standard formats. Used to support wet-lab scientists in creating proteomics data files ready for upload into the public repositories. | data, proteomics, conversion, file, laboratory, information, management, system, database, standard, format, , bio.tools |
is listed by: Debian is listed by: bio.tools is related to: Ruhr University Bochum; North Rhine-Westphalia; Germany |
European Union Projects ProDac ; European Union Projects ProteomeXchange ; the German Federal Ministry of Education and Research BMBF |
PMID:26182917 | Free, Available for download, Freely available | biotools:procon | https://bio.tools/procon | SCR_016363 | PROteomics CONversion | 2026-08-21 12:40:46 | 1 | ||||
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NanoFilt Resource Report Resource Website 100+ mentions |
NanoFilt (RRID:SCR_016966) | data processing software, software application, software resource | Software tool written in Python to perform its filtering based on mean read quality and GC content and read length. Used for filtering and trimming of long read sequencing data. | filtering, trimming, long, sequencing, data, read |
is listed by: OMICtools is listed by: Debian |
Free, Available for download, Freely available | https://sources.debian.org/src/nanofilt/ | SCR_016966 | 2026-08-21 12:41:00 | 331 | |||||||||
|
Monogenic Diabetes Registry Resource Report Resource Website |
Monogenic Diabetes Registry (RRID:SCR_015883) | MDR, NDR, MODYR | data or information resource, database, portal, project portal | Research project that aims to learn more about the number of people who have monogenic diabetes, why and how it happens, and how best to treat it. Any adult or child with a known genetic cause of diabetes may join the MODY Registry. | monogenic, diabetes, neonatal, mody, diabetes research, genetic disease |
is listed by: NIDDK Information Network (dkNET) is listed by: Diabetes Research Centers has parent organization: University of Chicago; Illinois; USA |
Diabetes, Monogenic Diabetes, Neonatal Diabetes, MODY | NIDDK | Public, Diagnosed individuals may register, Freely available | SCR_015883 | MODY Registry, Neonatal Diabetes Registry | 2026-08-21 12:40:29 | 0 | ||||||
|
ScaffMatch Resource Report Resource Website 1+ mentions |
ScaffMatch (RRID:SCR_017025) | data processing software, software application, software resource | Software tool as scaffolding algorithm based on maximum weight matching able to produce high quality scaffolds from next generation sequencing data (reads and contigs). Able to handle reads with both short and long insert sizes. | scaffolding, algorithm, maximum, weight, matching, next, generation, sequencing, data, read, contig, bio.tools |
uses: Python Programming Language is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Georgia State University; Georgia; USA |
NSF IIS 0916401 | PMID:25890305 | Free, Available for download, Freely available | biotools:scaffmatch, OMICS_08198 | http://alan.cs.gsu.edu/NGS/?q=content/scaffmatch, https://bio.tools/scaffmatch | SCR_017025 | 2026-08-21 12:41:14 | 1 | ||||||
|
BrainVision Recorder Resource Report Resource Website 100+ mentions |
BrainVision Recorder (RRID:SCR_016331) | data processing software, software application, software resource | Software for multifunctional recording designed to provide Brain Products GmbH- Solutions for Neurophysiological Research amplifier with a platform for recording setup and execution. | multifunctional, recording, Brain Products GmbH Solutions for Neurophysiological Research, amplifier, platform, recording, execution, setup | Commercially available, Available for trial | SCR_016332 | http://pressrelease.brainproducts.com/recorder-tips/ | SCR_016331 | 2026-08-21 12:41:03 | 153 | |||||||||
|
DMT Normalization Resource Report Resource Website 1+ mentions |
DMT Normalization (RRID:SCR_017024) | data processing software, software application, software resource | Software tool for calculating optimal pretension conditions for microvascular or any small tubular tissue research. DMT Normalization Add-On, provided by ADInstruments, is included as part of LabChart Pro or can be purchased separately. | calculating, optimal, pretension, condition, microvascular, small, tubular, tissue | Commercially available | SCR_017024 | DMT Normalization Add-On | 2026-08-21 12:41:04 | 1 | ||||||||||
|
National Glycohemoglobin Standardization Program Resource Report Resource Website 500+ mentions |
National Glycohemoglobin Standardization Program (RRID:SCR_015885) | NGSP | data or information resource, portal, project portal | Project that aims to standardize Hemoglobin A1c test results to those of the Diabetes Control and Complications Trial (DCCT) and United Kingdom Prospective Diabetes Study (UKPDS) which established the direct relationships between HbA1c levels and outcome risks in patients with diabetes. | glycohemoglobin, diabetes, dcct, ukpds, hba1c, diabetes patient, hemoglobin, a1c |
is listed by: NIDDK Information Network (dkNET) is listed by: Diabetes Research Centers |
Diabetes | NIDDK UC4 DK096587 | Public | SCR_015885 | NGSP: National Glycohemoglobin Standardization Program | 2026-08-21 12:40:48 | 932 | ||||||
|
BASTA Resource Report Resource Website 1+ mentions |
BASTA (RRID:SCR_017303) | data processing software, software application, software resource, software toolkit | Software package as Bayesian method to infer migration from genetic data. Implemented in BEAST2 that combines accuracy of methods based on structured coalescent with computational efficiency required to handle more than few populations. | Bayesian method, infer, migration, genetic, data, structured, coalescent, approximation, population | is related to: BEAST2 | DOI:10.1371/journal.pgen.1005421 | Free, Available for download, Freely available | SCR_017303 | BAyesian STructured coalescent Approximation, BASTA, BEAST2 | 2026-08-21 12:41:11 | 1 | ||||||||
|
GEOMAGIC Studio Resource Report Resource Website 1+ mentions |
GEOMAGIC Studio (RRID:SCR_016978) | GEOMAGIC Studio 12 | data processing software, software application, software resource | Software tool to convert 3D scans into parametric models. Transforms 3D scan data into highly accurate surface, polygon and native CAD models. Used for reverse engineering, product design, rapid prototyping and analysis. | 3D, scan, convert, data, surface, polygon, native, CAD, model | Free, Available for download, Freely available | https://de.3dsystems.com/press-releases/geomagic/studio-12-offers-fastest-way-to-convert-3d-scans-of-phy | SCR_016978 | 2026-08-21 12:41:13 | 1 | |||||||||
|
Albacore Resource Report Resource Website 100+ mentions |
Albacore (RRID:SCR_015897) | data processing software, software application, software resource | Data processing basecaller for the Oxford Nanopore sequencer that identifies DNA sequences directly from raw data. It enhances accuracy of the single-read sequence data, contributing to high consensus accuracy for nanopore sequence data. | sequence, dna, raw data, event detection, single-read, nanopore, basecaller, basecaller software, dockerfile | Free, Available for download | SCR_015897 | 2026-08-21 12:40:29 | 437 | |||||||||||
|
Natural Stress Relief Resource Report Resource Website |
Natural Stress Relief (RRID:SCR_015898) | NSR | data or information resource, organization portal, portal | Organization that provides instructions for and research on the Natural Stress Relief (NSR) meditation method. | stress, relief, natural, organization, non-profit, research, mediation | SCR_015898 | 2026-08-21 12:40:48 | 0 | |||||||||||
|
QDSpy Resource Report Resource Website 1+ mentions |
QDSpy (RRID:SCR_016985) | QDSpy | data processing software, software application, software resource | Software Python tool for scripting and presenting stimuli for visual neuroscience. | scripting, presenting, stimuli, visual, neuroscience | Free, Available for download, Freely available | http://qdspy.eulerlab.de/ | SCR_016985 | Quality Data System python software | 2026-08-21 12:41:13 | 7 | ||||||||
|
STRUCTURE Resource Report Resource Website 1000+ mentions |
STRUCTURE (RRID:SCR_017637) | software resource, software toolkit | Software package for using multi locus genotype data to investigate population structure. Used for inferring presence of distinct populations, assigning individuals to populations, studying hybrid zones, identifying migrants and admixed individuals, and estimating population allele frequencies in situations where many individuals are migrants or admixed. Can be applied to most of commonly used genetic markers, including SNPS, microsatellites, RFLPs and Amplified Fragment Length Polymorphisms. | Multi locus genotype data, investigate population structure, bio.tools |
is listed by: Debian is listed by: bio.tools is listed by: SoftCite is related to: STRAT has parent organization: Stanford University; Stanford; California works with: Structure Harvester |
PMID:21564903 PMID:18784791 PMID:12930761 PMID:10835412 |
Free, Available for download, Freely available | SCR_021634, nlx_154662, SCR_002151, biotools:structure | https://bio.tools/structure, http://pritch.bsd.uchicago.edu/structure.html, | SCR_017637 | structure, Structure | 2026-08-21 12:41:23 | 4177 | ||||||
|
Allen Human Reference Atlas, 3D, 2020 Resource Report Resource Website 1+ mentions |
Allen Human Reference Atlas, 3D, 2020 (RRID:SCR_017764) | atlas, data or information resource, reference atlas | Parcellation of adult human brain in 3D, labeling every voxel with brain structure spanning 141 structures. These parcellations were drawn and adapted from prior 2D version of adult human brain atlas. | Parcellation, adult, human, brain, 3D, atlas, data |
is used by: BICCN has parent organization: Allen Institute works with: Developing Human Brain Atlas version 2 (DHBAv2) |
Allen Institute for Brain Science ; NIMH U01 MH114812 |
Free, Available for download, Freely available | SCR_017764 | 2026-08-21 12:41:20 | 5 | |||||||||
|
GNU sed Resource Report Resource Website 1+ mentions |
GNU sed (RRID:SCR_018215) | data processing software, software application, software resource | Software tool as non interactive command line text editor. Command line that works with streams of characters for searching, filtering and text processing. Used for extracting part of file using pattern matching or substituting multiple occurrences of string within file. | Text editor, filter text, modify text, pattern matching extraction, matching occurrences replaced, substitute occurrence, text processing | Free Software Foundation | Free, Available for download, Freely available | SCR_018215 | GNU stream editor | 2026-08-21 12:41:26 | 2 | |||||||||
|
Racon Resource Report Resource Website 100+ mentions |
Racon (RRID:SCR_017642) | data processing software, software application, software resource | Software tool as de novo genome assembly from long uncorrected reads. Used to correct raw contigs generated by rapid assembly methods which do not include consensus step. Supports data produced by Pacific Biosciences and Oxford Nanopore Technologies. | Assembly, de novo, long, uncorrected, read, raw, contig, consensus, step, data, sequence, bio.tools |
is listed by: Debian is listed by: bio.tools is listed by: OMICtools |
A*STAR ; Singapore ; Croatian Academy of Sciences and Arts ; Croatian Science Foundation |
DOI:10.1101/068122 | Free, Available for download, Freely available | OMICS_25714, biotools:Racon, BioTools:Racon | https://bio.tools/Racon, https://sources.debian.org/src/racon/ | SCR_017642 | 2026-08-21 12:41:19 | 177 | ||||||
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seq-annot Resource Report Resource Website 1+ mentions |
seq-annot (RRID:SCR_018731) | software application, software resource, software toolkit, standalone software | Software Python package for annotating and counting genomic features in genomes and metagenomes. Software tools to facilitate annotation and comparison of genomes and metagenomes. | Annotating, counting, comparison, genomic feature, genome, metagenome, metagenomics, bio.tools |
is listed by: Debian is listed by: bio.tools |
Free, Available for download, Freely available | biotools:seq-annot | https://bio.tools/seq-annot | SCR_018731 | 2026-08-21 12:41:33 | 1 | ||||||||
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GNU Grep Resource Report Resource Website 1+ mentions |
GNU Grep (RRID:SCR_018212) | data processing software, software application, software resource | Software tool to searches one or more input files for lines containing a match to a specified pattern. Prints lines that contain match for one or more patterns. Command-line utility for searching plain-text data sets for lines that match regular expression. When finds match, it copies line to standard output (by default), or produces whatever other sort of output you have requested with options. | Print line, match pattern, input file, match search, pattern, plain text data, data set, match regular expression | Free, Freely available | SCR_018212 | GNU Grep 3.4, Grep | 2026-08-21 12:41:26 | 5 | ||||||||||
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TransDecoder Resource Report Resource Website 1000+ mentions |
TransDecoder (RRID:SCR_017647) | data processing software, software application, software resource, standalone software | Software tool to identify candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to genome using Tophat and Cufflinks.Starts from FASTA or GFF file. Can scan and retain open reading frames (ORFs) for homology to known proteins by using BlastP or Pfam search and incorporate results into obtained selection. Predictions can then be visualized by using genome browser such as IGV. | Identify, candidate, coding, region, transcript, sequence, de novo, RNAseq, assembly, alignment, genome, open, reading, frame, homology, protein, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
Free, Available for download, Freely available | biotools:transDecoder, OMICS_10852 | https://bio.tools/TransDecoder, https://sources.debian.org/src/transdecoder/, https://github.com/TransDecoder/TransDecoder/wiki | SCR_017647 | , Find Coding Regions Within Transcripts | 2026-08-21 12:41:19 | 1572 |
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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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