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https://cmif.osu.edu/

Offers services from sample preparation to image processing.Provides instrumentation for use such as electron microscopy, light microscopy, and access to other instrumentation for use in sample prep.

Proper citation: Ohio State University Campus Microscopy and Imaging Core Facility (RRID:SCR_025078) Copy   

•   Source: SciCrunch Registry

https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/DualRegression

Software application used as part of group level resting state analysis to identify subject specific contributions to group level Independent Component Analysis.

Proper citation: DualRegression (RRID:SCR_024940) Copy   

•   Source: SciCrunch Registry

https://github.com/luo-xiaolong/GSC

Software tool for lossless compression of VCF files, designed to efficiently store and manage VCF files in compressed format. It accepts VCF/BCF files as input and utilizes advanced compression techniques to significantly reduce storage requirements while ensuring fast query capabilities.

Proper citation: Genotype Sparse Compression (RRID:SCR_025071) Copy   

•   Source: SciCrunch Registry

https://research.med.psu.edu/core-facilities/atomic-force-microscopy-core/

Provides College of Medicine research community with access to atomic force microscopy equipment and expertise.

Proper citation: Penn State Hershey College of Medicine Atomic Force Microscopy Core Facility (RRID:SCR_025075) Copy   

•   Source: SciCrunch Registry

https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/TBSS

Software tool to improve sensitivity, objectivity and interpretability of analysis of multi-subject diffusion imaging studies.

Proper citation: Tract Based Spatial Statistics (RRID:SCR_024932) Copy   

•   Source: SciCrunch Registry

https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/XTRACT

Software command line tool for automated tractography. Standardised protocols for automated tractography in human and macaque brain.

Proper citation: XTRACT (RRID:SCR_024933) Copy   

•   Source: SciCrunch Registry

https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/eddy

Software tool for correcting eddy currents and movements in diffusion data. Used to predict undistorted data, to which actual observed images can be aligned, to estimate and to correct for volume-to-volume movement and off-resonance fields, to signal dropout caused by movement during diffusion encoding, within-volume movement and movement-induced changes of susceptibility-induced off-resonance field. In addition to correcting for these effects, the output from this framework offers description of off resonance and subject movement effects present in uncorrected data.

Proper citation: eddy (RRID:SCR_024934) Copy   

•   Source: SciCrunch Registry

https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Randomise

Software tool for nonparametric permutation inference on neuroimaging data.

Proper citation: randomise (RRID:SCR_024937) Copy   

•   Source: SciCrunch Registry

https://mlcommons.org/

Artificial Intelligence engineering consortium, built on philosophy of open collaboration to improve AI systems to measure and improve accuracy, safety, speed and efficiency of AI technologies helping companies and universities around the world. Community-driven and community-funded effort.

Proper citation: ML Commons (RRID:SCR_025043) Copy   

•   Source: SciCrunch Registry

https://research.lsuhs.edu/cores/research-core-facilities/high-throughput-screening-inlet

Facility focused on discovery and development of drugs and genetic targets that affect human diseases including cancer, fungal, bacterial and viral infection, neurological disorders and cardiovascular disorders. Both live and fixed high throughput microscopy is performed using Incucyte S3, Incucyte SX5 and Cellomics ArrayScan VTI HCS Reader. Provides expertise and protocol design for variety of assays including: Cell proliferation, Cell viability, Phagocytosis, Chemotaxis, Cell migration/invasion, 3D spheroid growth. INLET Core provides cutting edge, multiplexed functional imaging platforms to perform multi-well high-throughput live-cell imaging and analysis assays., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: Louisiana State University Health Sciences Shreveport INLET High Throughput Screening Core Facility (RRID:SCR_024990) Copy   

•   Source: SciCrunch Registry

https://github.com/JustinChu/ntsm

Software alignment free, ultra low coverage, sequencing technology agnostic, intraspecies sample comparison tool for sample swap detection. Used to count number of specific k-mers within sequence data. The counts can then be compare to other counts to determine to compute the probability that sample are of the same origin to discover incongruent samples or sample swaps.

Proper citation: ntsm (RRID:SCR_024994) Copy   

•   Source: SciCrunch Registry

https://broadinstitute.github.io/warp/docs/Pipelines/snm3C/README

Software open-source, cloud-optimized computational workflow for processing single-nucleus methylome and chromatin contact (snm3C) sequencing data. The workflow is designed to demultiplex and align raw sequencing reads, call chromatin contacts, and generate summary metrics.

Proper citation: snm3C Pipeline (RRID:SCR_025041) Copy   

•   Source: SciCrunch Registry

https://github.com/patrickwest/EukRep

Software tool as classifier that utilizes k-mer composition of assembled sequences to identify eukaryotic genome fragments prior to gene prediction. Used for eukaryotic sequence identification. Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets.

Proper citation: EukRep (RRID:SCR_024985) Copy   

•   Source: SciCrunch Registry

https://numba.readthedocs.io/en/stable/index.html

Open source JIT compiler that translates subset of Python and NumPy code into fast machine code. Can compile large subset of numerically-focused Python, including many NumPy functions. Has support for automatic parallelization of loops, generation of GPU-accelerated code, and creation of ufuncs and C callbacks.

Proper citation: Numba (RRID:SCR_025056) Copy   

•   Source: SciCrunch Registry

https://www.3ds.com/products/simulia/abaqus

Software suite for finite element analysis and computer aided engineering.

Proper citation: Abaqus FEA (RRID:SCR_024997) Copy   

•   Source: SciCrunch Registry

https://eelliottnew.weebly.com/pitt-isotope-tracers-lab.html

One of several isotope labs in Department of Geology and Environmental Science formerly known as Regional Stable Isotope Lab for Earth and Environmental Science Research, has capacity for wide variety of isotopic measurements in multitude of sample media. Capabilities include: Nitrate (?15N, ?18O, D17O);Greenhouse and trace gases like carbon dioxide (?13C, ?18O), nitrous oxide (?15N, ?18O), methane (?13C); Nitrogen, carbon, and sulfur (?15N, ?13C, ?34S) in organic and other solid materials (e.g., biota, soils);Ammonium (?15N); Dry reactive nitrogen deposition (?15N-NH3, ?15-NO2, and ?15N-HNO3); and Carbonates (?13C, ?18O).

Proper citation: University of Pittsburgh Dietrich School of Arts and Sciences Pitt Isotope Tracer Lab Core Facility (RRID:SCR_025145) Copy   

•   Source: SciCrunch Registry

http://aic.pitt.edu

Core provides instrumentation and expertise for high-field Preclinical Magnetic Resonance Imaging and Magnetic Resonance Microscopy. Facility has instruments: Bruker 9.4 Tesla/30 cm AVANCE 3 HD scanner and Bruker 11.7 Tesla 89 mm AVANCE 3 HD micro imaging system.

Proper citation: University of Pittsburgh Advanced Imaging Center Core Facility (RRID:SCR_025139) Copy   

•   Source: SciCrunch Registry

https://ssbd.riken.jp/azebex/

Collection of in situ hybridization data of gene expression in the brain of adult fish. Data can be viewed and downloaded.

Proper citation: Adult Zebrafish Brain Gene Expression Database (RRID:SCR_025122) Copy   

•   Source: SciCrunch Registry

http://www.nano.pitt.edu

Core supports fabrication and characterization of nanoscale materials and structures, and integration of devices at all length scales. Houses advanced equipment with core nano-level capability for fabrication and characterization, including electron-beam lithography system, dual-beam system, plasma etching, thin film deposition, TEM, multifunctional scanning probe station, modular XRD, and more.

Proper citation: University of Pittsburgh Nanoscale Fabrication and Characterization Core Facility (RRID:SCR_025124) Copy   

•   Source: SciCrunch Registry

https://researchservices.pitt.edu/facilities/x-ray-crystallography-lab

X-Ray Diffraction Facility located in Chemistry Instrumentation Center is equipped with Bruker X8 Prospector Ultra with Copper ImuS micro-focus X-ray source and Bruker D8 Venture Dual source (Molybdenum and Copper micro-focus X-ray tubes) diffractometer with Photon III CPAD detector. Data can be collected at nitrogen-cooled temperatures as low as 90K. Core provides sample submission services for small molecule crystalography.

Proper citation: University of Pittsburgh Dietrich School X-ray Crystallography Core Facility (RRID:SCR_025125) Copy   

•   Source: SciCrunch Registry