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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.

(last updated: Oct 12, 2019)

Physical Resource or Software Tool Software

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Resource NameResource TypeDescriptionKeywordsResource IDProper CitationParent OrganizationRelated ConditionFunding AgencyRelationReferenceWebsite StatusAlternate IDsAlternate URLsOld URLs
TIGSResource, workflow, narrative resource, service resource, training material, storage service resource, data repository, data or information resourceRepository to share analysis procedure, data and help readers or reviewers to know more detail of this work, reproduce or make use of results they are interested in.Share, analysis, procedure, data, tumor, immunogenicitySCR_017565(TIGS, RRID:SCR_017565)submitted by: Resource Identification PortalLast checked up
MIITRA atlasResource, atlas, data or information resourceAtlas for studies of older adult brain. Includes T1-weighted template of older adult brain and tissue probability maps. Exhibits high image sharpness, provides higher inter-subject spatial normalization accuracy compared to other standardized templates and similar normalization accuracy to well-constructed study-specific templates.Older, adult, brain, tissue, probability, map, standardized, templateSCR_017566(MIITRA atlas, RRID:SCR_017566)NIAlisted by: NeuroImaging Tools and Resources Collaboratory (NITRC)Last checked uphttps://www.nitrc.org/frs/?group_id=1407&release_id=4156
HomoeologPrimerResource, software resource, software applicationSoftware tool as script used to design primers for homoeologs, to amplify either homoeolog specific or all homoeologs.Design, primer, homoeolog, amplifySCR_017559(HomoeologPrimer, RRID:SCR_017559)Last checked up
parSMURFResource, software resource, software application, data processing softwareOpen source software package as high performance computing imbalance aware machine learning tool for genome wide detection of pathogenic variants.High, performance, computing, imbalance, aware, machine, learning, genome, wide, detection, pathogenic, variantSCR_017560(parSMURF, RRID:SCR_017560)Last checked up
ExonerateTransferAnnotationResource, software resource, software application, data processing softwareSoftware tool as pipeline to make anntotations using cDNA and CDS sequences.Exonerate, transfer, annotation, cDNA, CDS, sequence, pipeline, geneSCR_017557(ExonerateTransferAnnotation, RRID:SCR_017557)uses: ExonerateLast checked up
vbSPTResource, software resource, software application, data analysis software, data processing softwareSoftware package for analysis of single particle diffusion trajectories, where diffusion constants switch randomly according to Markov process. Analytical tool to combine information from thousands of short single-molecule trajectories of intracellularly diffusing proteins. Has ability to learn number of diffusive states directly from data, in addition to model parameters such as transition rates and diffusion constants.Analysis, single, particle, diffusion, trajectory, Markov, short, molecule, intracellularly, protein, data, transition, stateSCR_017554(vbSPT, RRID:SCR_017554)PMID:23396281Last checked uphttps://sourceforge.net/projects/vbspt/files/latest/download?source=files
Gsnap2AugustusResource, software resource, software application, simulation softwareSoftware tool to generate hints for Augustus in ab initio gene prediction using 2 step mapping by Gsnap.Generate, hint, Augustus, gene, prediction, mapping, GsnapSCR_017555(Gsnap2Augustus, RRID:SCR_017555)uses: GSNAP, works_with: AugustusLast checked up
AutoEVMResource, software resource, software application, data processing softwareSoftware tool as Autorun Evidence Modeler. Requires EVidenceModeler (aka EVM) software which combines ab into gene predictions and protein and transcript alignments into weighted consensus gene structures.Autorun, Evidence, Modeler, gene, prediction, protein, transcript, elignment, weighted, gene, structureSCR_017556(AutoEVM, RRID:SCR_017556)Last checked up
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