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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | ||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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University of Texas at Austin College of Pharmacy Resource Report Resource Website |
University of Texas at Austin College of Pharmacy (RRID:SCR_011717) | data or information resource, graduate program resource, institution, organization portal, portal, postdoctoral program resource, training resource, university | The College of Pharmacy at The University of Texas at Austin is one of the premier institutions of pharmaceutical education and research in the country. Our college is a national leader in pharmacy education with a curriculum designed to prepare pharmacy graduates for lifelong learning and leadership capabilities as drug therapy managers in the nation's healthcare system. The pharmacist of the 21st century has significant responsibility for managing drug therapy, counseling patients on proper use of medications, and monitoring drug therapy outcomes. | has parent organization: University of Texas at Austin; Texas; USA | nlx_79866 | SCR_011717 | SciCrunch Registry | UTA College of Pharmacy | 2026-11-07 11:57:28 | 0 | ||||||||||
|
ConDeTri Resource Report Resource Website 50+ mentions |
ConDeTri (RRID:SCR_011838) | ConDeTri | software resource | Software tool as content dependent read trimmer for Illumina data. Content dependent read trimming software for Illumina/Solexa sequencing data. | Solexa sequencing data, Illumina data, data read trimming, read trimmer, sequencing data, |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
PMID:22039460 | Free, Available for download, Freely available | OMICS_01085, biotools:condetri | https://bio.tools/condetri, https://sources.debian.org/src/condetri/, https://github.com/linneas/condetri/ | SCR_011838 | SciCrunch Registry | 2026-11-07 11:57:20 | 67 | ||||||
|
University of Texas at El Paso Resource Report Resource Website 1+ mentions |
University of Texas at El Paso (RRID:SCR_011718) | UTEP | university | UTEP officially opened in the fall of 1914 and is the second oldest institution in The University of Texas System. | undergraduate, graduate, master's, doctoral, phD, institution, university |
has parent organization: University of Texas System; Texas; USA is parent organization of: UTEP BSL 3 Laboratory is parent organization of: University of Texas El Paso Analytical Cytology Core Facility is parent organization of: University of Texas El Paso Bioinformatics Computing Laboratory is parent organization of: UTEP Biomolecule Analysis Core Facility is parent organization of: UTEP Cell Culture and High Throughput Screening Core Facility is parent organization of: UTEP DNA Analysis Core Facility is parent organization of: UTEP Statistical Consulting Laboratory |
nlx_156106, Wikidata:Q2093110, ISNI:0000 0001 0668 0420, grid.267324.6 | https://ror.org/04d5vba33 | SCR_011718 | SciCrunch Registry | University of Texas at El Paso | 2026-11-07 11:57:28 | 1 | |||||||
|
Quake Resource Report Resource Website 50+ mentions |
Quake (RRID:SCR_011839) | Quake | software resource | A software package to correct substitution sequencing errors in experiments with deep coverage (e.g. >15X), specifically intended for Illumina sequencing reads. |
is listed by: OMICtools has parent organization: University of Maryland; Maryland; USA |
OMICS_01106 | SCR_011839 | SciCrunch Registry | 2026-11-07 11:57:22 | 80 | ||||||||||
|
University of Texas at San Antonio; Texas; USA Resource Report Resource Website 1+ mentions |
University of Texas at San Antonio; Texas; USA (RRID:SCR_011719) | UTSA | university | Public research university in San Antonio, Texas. |
is parent organization of: UTSA Engineering Core is parent organization of: GENESIS Neural Database and Modelers Workspace is parent organization of: Neuroscientists Talk Shop is parent organization of: General Neural Simulation System is parent organization of: GEneral NEural SImulation System: The Neurospaces Project is parent organization of: University of Texas at San Antonio Laboratory of Professor Brenda Claiborne is parent organization of: Computer-Assisted Information Retrieval Service System for Music is parent organization of: EEGVIS is parent organization of: UTSA Biophysics Facility is parent organization of: UTSA Cellular and Tissue Engineering Laboratory is parent organization of: UTSA Computational Biology Initiative is parent organization of: UTSA Kleberg Advanced Microscopy Laboratory is parent organization of: University of Texas San Antonio Cell Analysis Core Facility is parent organization of: UTSA RCMI Computational Systems Biology Core is parent organization of: UTSA RCMI Nanotechnology and Human Health Core is parent organization of: University of Texas San Antonio Mass Spectrometry and Proteomics Core Facility is parent organization of: UTSA SNRP Image Analysis Core is parent organization of: UTSA SNRP Neurostatistics Core is parent organization of: UTSA X-ray Crystallography Laboratory is parent organization of: BCmicrO is parent organization of: UTSA RCMI Proteomics and Protein Biomarkers Cores is parent organization of: University of Texas at San Antonio Labs and Facilities is parent organization of: ExomePeak is parent organization of: NeuroManager is parent organization of: University of Texas at San Antonio Stem Cell Core Facility |
Wikidata:Q183170, grid.215352.2, ISNI:121845633, Crossref funder ID:100008634, nlx_67879 | https://ror.org/01kd65564 | SCR_011719 | SciCrunch Registry | UTSA | 2026-11-07 11:57:18 | 3 | ||||||||
|
SBEAMS Resource Report Resource Website 1+ mentions |
SBEAMS (RRID:SCR_011830) | SBEAMS | software resource | Software providing a framework for collecting, storing, and accessing data produced by a wide variety of experiments. | proteomics, microarray | is listed by: OMICtools | PMID:16756676 | OMICS_01011 | SCR_011830 | SciCrunch Registry | Systems Biology Experiment Analysis Management System | 2026-11-07 11:57:20 | 9 | |||||||
|
Circos Resource Report Resource Website 5000+ mentions |
Circos (RRID:SCR_011798) | Circos | software resource | A software package for visualizing data and information. It visualizes data in a circular layout - this makes Circos ideal for exploring relationships between objects or positions. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is related to: JupiterPlot |
DOI:10.1101/gr.092759.109 | biotools:circos, OMICS_00932 | https://bio.tools/circos, https://sources.debian.org/src/circos/ | SCR_011798 | SciCrunch Registry | 2026-11-07 11:57:22 | 5669 | |||||||
|
Babraham Sierra Resource Report Resource Website 1+ mentions |
Babraham Sierra (RRID:SCR_011831) | software resource | Web based Laboratory Information Management System (LIMS) system which can be used to track samples and distribute results within small sequencing facility. Provides simple way to track samples within facility and return sequencing, mapping and QC results to users. | LIMS, Laboratory Information Management System, track samples, distribute results within small sequencing facility, track samples within facility and return sequencing, mapping and QC results, | has parent organization: Babraham Institute | GNU General Public License, v3 or later | OMICS_01014 | SCR_011831 | SciCrunch Registry | Sierra | 2026-11-07 11:57:22 | 6 | ||||||||
|
University of Technology at Sydney; New South Wales; Australia Resource Report Resource Website 1+ mentions |
University of Technology at Sydney; New South Wales; Australia (RRID:SCR_011711) | UTS | university | Public research university located in Sydney, Australia. |
is parent organization of: UTS Chemical Technologies Research Facility is parent organization of: UTS Microstructural Analysis Unit is parent organization of: University of Technology at Sydney Biosciences and Proteomics Technologies is parent organization of: University of Technology Sydney Microbial Imaging Core Facility |
nlx_153963, grid.117476.2, Wikidata:Q1145731, ISNI:0000 0004 1936 7611, Crossref funder ID:501100001775 | https://ror.org/03f0f6041 | SCR_011711 | SciCrunch Registry | University of Technology Sydney, University of Technology at Sydney | 2026-11-07 11:57:28 | 4 | ||||||||
|
G-compass Resource Report Resource Website 1+ mentions |
G-compass (RRID:SCR_011799) | G-compass | software resource | It visualizes evolutionarily conserved genomic regions between human and other 12 vertebrates based on original genome alignments pursuing higher coverage. | is listed by: OMICtools | OMICS_00934 | SCR_011799 | SciCrunch Registry | 2026-11-07 11:57:29 | 1 | ||||||||||
|
discovering-cse Resource Report Resource Website |
discovering-cse (RRID:SCR_011832) | discovering-cse | software resource | Software for discovering motifs that induce sequencing errors. | motif |
is listed by: OMICtools has parent organization: Google Code |
GNU General Public License, v3 | OMICS_01040 | SCR_011832 | SciCrunch Registry | Discovering Context-Specific Sequencing Errors | 2026-11-07 11:57:29 | 0 | |||||||
|
University of Tennessee; Tennessee; USA Resource Report Resource Website 1+ mentions |
University of Tennessee; Tennessee; USA (RRID:SCR_011712) | UT | university | University of Tennessee System is comprised of campuses at Knoxville, Chattanooga, Pulaski and Martin; Health Science Center at Memphis; Space Institute at Tullahoma; and statewide Institute of Agriculture and Institute for Public Service. |
is parent organization of: University of Tennessee Health Science Center; Tennessee; USA is parent organization of: University of Tennessee Knoxville; Tennessee; USA is parent organization of: University of Tennessee KnoxvilleAdvanced Microscopy and Imaging Center AMIC Core Facility is parent organization of: University of Tennessee at Knoxville Genomics Core Facility |
, Crossref Funder ID 100014455, GRID grid.411461.7, nlx_14003, ISNI 0000 0001 2315 1184, Wikidata Q1150105 | https://ror.org/020f3ap87 | SCR_011712 | SciCrunch Registry | University of Tennessee | 2026-11-07 11:57:28 | 2 | ||||||||
|
MT-Toolbox Resource Report Resource Website 1+ mentions |
MT-Toolbox (RRID:SCR_011833) | MT-Toolbox | software resource | A software package for building accurate ConSeqs from tagged reads. | is listed by: OMICtools | PMID:23995388 | BSD License | OMICS_01058 | SCR_011833 | SciCrunch Registry | Molecule Tag Toolbox | 2026-11-07 11:57:31 | 4 | |||||||
|
AlienTrimmer Resource Report Resource Website 50+ mentions |
AlienTrimmer (RRID:SCR_011835) | AlienTrimmer | software resource | Allows detecting and removing multiple alien sequences in both ends of sequence reads. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:23912058 | Free | biotools:alientrimmer, OMICS_01082 | https://bio.tools/alientrimmer | SCR_011835 | SciCrunch Registry | 2026-11-07 11:57:22 | 74 | ||||||
|
University of the Sciences in Philadelphia College of Pharmacy Resource Report Resource Website |
University of the Sciences in Philadelphia College of Pharmacy (RRID:SCR_011728) | data or information resource, degree granting program, graduate program resource, institution, organization portal, portal, training resource, undergraduate program resource, university | Pharmaceutical education began at Philadelphia College of Pharmacy (PCP), the first such institution in North America. With nearly two centuries of experience in pharmacy and science and thousands of alumni working in the healthcare industry, the world turns to PCP graduates for advice. From undergraduate majors to graduate degrees to our esteemed PharmD program, you can learn where the founders (alumni such as McNeil, Lilly, Rorer, Wyeth, Warner, Burroughs, and Wellcome) of six of the top pharmaceutical companies in the world got their education. Since 1821, they have been preparing professionals in pharmacy practice, science, and health care. There is no better place than PCP to prepare you for a lifelong career in the healthcare industry. | has parent organization: University of Sciences in Philadelphia; Pennsylvania; USA | nlx_16974 | SCR_011728 | SciCrunch Registry | PCP College of Pharmacy | 2026-11-07 11:57:28 | 0 | ||||||||||
|
University of Texas at Tyler; Texas; USA Resource Report Resource Website 1+ mentions |
University of Texas at Tyler; Texas; USA (RRID:SCR_011720) | university | Public university in Tyler, Texas. Founded in 1971, it is a part of the University of Texas System. |
is parent organization of: SRPDB is parent organization of: tmRNA Database |
Wikidata:Q212528, ISNI:0000 0001 0626 4654, nlx_48968, grid.267327.5 | https://ror.org/01azfw069 | SCR_011720 | SciCrunch Registry | UTT | 2026-11-07 11:57:21 | 1 | |||||||||
|
QTrim Resource Report Resource Website 1+ mentions |
QTrim (RRID:SCR_011842) | QTrim | software resource | A next generation sequence quality trimming tool. | is listed by: OMICtools | OMICS_01089 | SCR_011842 | SciCrunch Registry | 2026-11-07 11:57:20 | 6 | ||||||||||
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sabre Resource Report Resource Website 100+ mentions |
sabre (RRID:SCR_011843) | sabre | data analysis software, data processing software, software application, software resource | Software tool to demultiplex barcoded reads into separate files. Works on both single-end and paired-end data in fastq format. Used in next generation sequencing to analyze a broad range of data. | demultiplex, bardcode, separate, fastq, format, data, next, generation, sequencing, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
Free, Available for download, Freely available | biotools:sabre, OMICS_01090 | https://bio.tools/sabre | SCR_011843 | SciCrunch Registry | Systems Approach to Biomarker Research | 2026-11-07 11:57:22 | 219 | ||||||
|
Scythe Resource Report Resource Website 100+ mentions |
Scythe (RRID:SCR_011844) | Scythe | software resource | Scythe uses a Naive Bayesian approach to classify contaminant substrings in sequence reads. |
is listed by: OMICtools is listed by: Debian |
OMICS_01091 | https://sources.debian.org/src/scythe/ | SCR_011844 | SciCrunch Registry | Scythe - A Bayesian adapter trimmer | 2026-11-07 11:57:29 | 189 | ||||||||
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SeqtrimNEXT Resource Report Resource Website 10+ mentions |
SeqtrimNEXT (RRID:SCR_011845) | SeqtrimNEXT | software resource | A customizable and distributed pre-processing software for NGS (Next Generation Sequencing) biological data.The old version for Sanger sequences, Seqtrim, has been discontinued. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian |
biotools:seqtrim, OMICS_01093 | https://bio.tools/seqtrim | SCR_011845 | SciCrunch Registry | Seqtrim | 2026-11-07 11:57:32 | 29 |
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The data sets included in this resource are published in Kravitz et al, 2012. Distinct roles for direct and indirect pathway striatal neurons in reinforcement (Nat. Neurosci).
