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https://github.com/ABCD-STUDY/little-man-task
Software tool to manage data and derived results. It is used for import of derived measures into REDCap (Research Electronic Data Capture).
Proper citation: little-man-task (RRID:SCR_016018) Copy
Brain connectivity atlas to create systematic, digital repository for data on connections between different cortical areas, in primate species. Data repository for connections between different cortical areas in marmoset monkeys. Allows access to data set and enables other interpretations of data, in light of future evolution of knowledge about marmoset cortex.
Proper citation: Marmoset Brain Connectivity Atlas (RRID:SCR_015964) Copy
https://github.com/ABCD-STUDY/redcap-completion
Software to measure item level completion in a large REDCap project. It provides a web-interface to review data and it is used in the ABCD project to assess data collection sites for the reached level of completion.
Proper citation: redcap-completion (RRID:SCR_016019) Copy
https://github.com/ABCD-STUDY/timeline-followback
Software to capture subject information about substance use using local copies of external files provided by the abcd-report framework of ABCD. No connection to REDCap is attempted to get events and participant names but local files are read in to supply this information.
Proper citation: timeline-followback (RRID:SCR_016017) Copy
https://github.com/ABCD-STUDY/aux-file-upload
Software application to upload functional MR imaging runs produce auxilary data that can be collected centrally. Connects to a subject database research electronic data capture (REDCap).
Proper citation: aux-file-upload (RRID:SCR_016026) Copy
https://github.com/ABCD-STUDY/FIONA-QC-PHANTOM
Software for online quality control operations performed on Phantom MRI data. It checks the accuracy and reproducibility of data.
Proper citation: FIONA-QC-PHANTOM (RRID:SCR_016024) Copy
https://github.com/ABCD-STUDY/nih-ipad-app-end-point
Data collection software for centrally and securely storing data from the NIH iPad application. It allows users to capture results from multiple iPads at a central location.
Proper citation: nih-ipad-app-end-point (RRID:SCR_016029) Copy
https://github.com/ABCD-STUDY/redcap-to-nda
Software for metadata-driven electronic data capture to export REDCap data dictionaries and data to the NIMH National Data Archive (NDA). Prepares data submissions as csv formatted spreadsheets for data dictionary spreadsheets and for data spreadsheets.
Proper citation: redcap-to-nda (RRID:SCR_016008) Copy
https://github.com/hakyimlab/PrediXcan
Software tool to detect known and novel genes associated with disease traits and provide insights into the mechanism of these associations. Used to test the molecular mechanisms through which genetic variation affects phenotype.
Proper citation: PrediXcan (RRID:SCR_016739) Copy
https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FIRST
Software model based segmentation and registration tool. Used for segmentation of sub-cortical structures. Introduces basic segmentation and vertex analysis for detecting group differences.
Proper citation: FMRIB’s Integrated Registration and Segmentation Tool (RRID:SCR_024921) Copy
https://reprint-apms.org/?q=chooseworkflow
Database of Mass Spectrometry contaminants and pipeline for Affinity Purification coupled with Mass Spectrometry analysis. Contaminant repository for affinity purification mass spectrometry data. Database of standardized negative controls. Used to identify protein-protein interactions.
Proper citation: CRAPome (RRID:SCR_025008) Copy
Repository of person centered measures that evaluates and monitors physical, mental, and social health in adults and children.
Proper citation: Patient-Reported Outcomes Measurement Information System (RRID:SCR_004718) Copy
Collection of revertible protein trap gene-breaking transposon (GBT) insertional mutants in zebrafish with active or cryopreserved lines from initially identified lines. Open to community-wide contributions including expression and functional annotation and represents world-wide central hub for information on how to obtain these lines from diverse members of International Zebrafish Protein Trap Consortium (IZPTC) and integration within other zebrafish community databases including Zebrafish Information Network (ZFIN), Ensembl and National Center for Biotechnology Information. Registration allows users to save their favorite lines for easy access, request lines from Mayo Clinic catalog, contribute to line annotation with appropriate credit, and puts them on optional mailing list for future zfishbook newletters and updates.
Proper citation: zfishbook (RRID:SCR_006896) Copy
https://github.com/calico/borzoi
Software package to access the Borzoi models, which are convolutional neural networks trained to predict RNA-seq coverage at 32bp resolution given 524kb input sequences.
Proper citation: Borzoi (RRID:SCR_026619) Copy
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