Tools   Select Another Resource Report Type

https://www.microsoft.com/en-my/microsoft-365/powerpoint

Presentation software developed by Microsoft Corporation. Part of Microsoft Office suite. Used for creating slideshows and delivering presentations.

Proper citation: Microsoft PowerPoint (RRID:SCR_023631) Copy   

•   Source: SciCrunch Registry

https://zonationteam.github.io/Zonation5/

Spatial prioritization software used to identify priority areas to support conservation planning, land use planning, ecological impact avoidance and other similar tasks.

Proper citation: Zonation 5 (RRID:SCR_023745) Copy   

•   Source: SciCrunch Registry

https://www.oracle.com/applications/crystalball/

Software spreadsheet based application for risk measurement and reporting, Monte Carlo simulation, time series forecasting, and optimization.Provides realistic and accessible way of modeling uncertainty, enabling you to measure and report on risk inherent in your key metrics.

Proper citation: Oracle Crystal Ball (RRID:SCR_023226) Copy   

•   Source: SciCrunch Registry

https://github.com/kblin/ncbi-acc-download

Software tool as partner script to the popular ncbi-genome-download script. Allows to download sequences from GenBank/RefSeq by accession through the NCBI ENTREZ API.

Proper citation: NCBI accession download script (RRID:SCR_024130) Copy   

•   Source: SciCrunch Registry

https://lucy.sourceforge.net/

Software tool to clean sequence data from automated DNA sequencers prior to sequence assembly and other downstream uses.

Proper citation: Lucy (RRID:SCR_024099) Copy   

•   Source: SciCrunch Registry

http://aeskulap.nongnu.org

Software application as medical image viewer.Able to load series of special images stored in DICOM format for review. Able to query and fetch DICOM images from archive nodes (also called PACS) over the network. Designed to run under Linux.

Proper citation: Aeskulap (RRID:SCR_023960) Copy   

•   Source: SciCrunch Registry

https://www.topazlabs.com/gigapixel-ai

Software to increase image resolution. Gigapixel AI’s neural networks are continuously trained on sample images to increase resolution of different subjects like portraits, wildlife, landscapes, architecture and image types like DSLR, web/compressed, CG.

Proper citation: Gigapixel AI (RRID:SCR_023684) Copy   

•   Source: SciCrunch Registry

https://www.thermofisher.com/de/de/home/digital-science/thermo-fisher-connect.html

Platform for connecting people, software, data, and equipment. Helps integrating software, instruments, and data across your lab’s existing ecosystem. Provides: workflows guide users through processes involving multiple systems;Centralized access to Thermo Fisher Scientific instrument service and expertise;Connectivity to monitor and maintain instruments and equipment;Granular data sharing controls to enhance collaboration;Secure environment.

Proper citation: ThermoFisher Connect Platform (RRID:SCR_023441) Copy   

•   Source: SciCrunch Registry

https://github.com/IBT-FMI/ABI-expression-data_generator

Software to download expression data from Allen Mouse Brain data portal ABI. This script will query database, download available data, convert it from the raw/mhd format to NIfTI, and register it to standard space. Package-manager-friendly archive of gene expression maps registered in SMRI standard space from the Allen Mouse Brain Atlas.

Proper citation: ABI-expression-data-generator (RRID:SCR_023834) Copy   

•   Source: SciCrunch Registry

https://desmid.github.io/mview/

Web-compatible database search or multiple alignment viewer, Software tool as command line utility that extracts and reformats the results of a sequence database search or a multiple alignment, optionally adding HTML markup for web page layout. It can also be used as a filter to extract and convert searches or alignments to common formats.

Proper citation: MView (RRID:SCR_024129) Copy   

•   Source: SciCrunch Registry

https://www.ebrains.eu/brain-atlases/analysis/gene-expression-analysis-in-human-brain-atlas-regions/

Software tool for integrating tissue transcriptome and cytoarchitectonic segregation. Combines data from Allen Human Brain Atlas and the EBRAINS Human Brain Atlas, specifically to discover how gene activities and microanatomical architectures contribute to brain function and dysfunction. Both tissue transcriptome and probabilistic brain segregation data allow for integrating genetic expression, brain structure, and function knowledge.

Proper citation: JuGEx (RRID:SCR_023838) Copy   

•   Source: SciCrunch Registry

https://pypi.org/project/findmaxima2d/

Software Python 2D Maxima finding algorithm. Re-implementation of Java plugin for ImageJ/Fiji.

Proper citation: findmaxima2d (RRID:SCR_023332) Copy   

•   Source: SciCrunch Registry

https://github.com/petersaj/AP_histology

Software data pipeline which aligns histology images to the Allen CCF.

Proper citation: AP-histology (RRID:SCR_023847) Copy   

•   Source: SciCrunch Registry

http://www.listdiff.com/

Software tool that performs SET Operations including Set Intersections, Set Unions and Set Differences over lists of words, numbers etc with formatted results . Used for comparing differences between two lists.

Proper citation: ListDiff (RRID:SCR_023569) Copy   

•   Source: SciCrunch Registry

http://rambok.sourceforge.net/

Software tool for rapid and sensitive removal of background sequences from Next Generation Sequencing data.

Proper citation: rambo-k (RRID:SCR_024198) Copy   

•   Source: SciCrunch Registry

https://metacpan.org/dist/Bio-Tools-Run-Alignment-TCoffee

Software object for calculation of multiple sequence alignment from set of unaligned sequences or alignments using the TCoffee program.

Proper citation: Bio-Tools-Run-Alignment-TCoffee (RRID:SCR_024070) Copy   

•   Source: SciCrunch Registry

https://www.dtu.ox.ac.uk/homacalculator/

Software tool used to calculate Homeostasis Model Assessment which takes account of variations in hepatic and peripheral glucose resistance, increases in insulin secretion curve for plasma glucose concentrations and contribution of circulating proinsulin. Provides access to HOMA2 model for researchers who wish to use model derived estimates of %B and %S, rather than linear approximations.

Proper citation: HOMA2 calculator (RRID:SCR_023419) Copy   

•   Source: SciCrunch Registry

https://www.vitalimages.com/enterprise-imaging-solution/diagnostic-viewer/

Software application providing tools and features that may be used for general purpose radiological viewing and reading of image data from various imaging modalities, clinical review and performs functions of digital image processing, measurement, communications and storage.

Proper citation: Vitrea Read Diagnostic Viewer (RRID:SCR_023418) Copy   

•   Source: SciCrunch Registry

https://namsor.app/

Software tool accurately classifies personal names by gender, country of origin or ethnicity. Can infer gender, translate Chinese names and Japanese names, format phone number, and split full name via user interface and API. Used as name checker for gender, origin and ethnicity determination.

Proper citation: NamSor (RRID:SCR_023935) Copy   

•   Source: SciCrunch Registry

https://github.com/AstraZeneca-NGS/VarDictJava

Software tool as variant caller for both single and paired sample variant calling from BAM files. Implements amplicon bias aware variant calling from targeted sequencing experiments, rescue of long indels by realigning bwa soft clipped reads.Novel and versatile variant caller for next generation sequencing in cancer research.

Proper citation: VarDict (RRID:SCR_023658) Copy   

•   Source: SciCrunch Registry