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https://www.rapidnovor.com/antibody-sequencing-service/
Service for monoclonal antibody protein sequencing. It derives the sequences directly from the protein using mass spectrometry and without the need to access the cell line.
Proper citation: REmAb (RRID:SCR_016239) Copy
https://github.com/alesssia/YAMP
Software for processing and analysis of sequencing data. It has a strong focus on quality control, timely processing, functional annotation, and portability.
Proper citation: YAMP (RRID:SCR_016236) Copy
Software application which provides a graphical interface to build, view and analyze atomic structures. It provides a graphical interface to study atomic structures, to prepare images for presentations, and teach the atomic structure of matter.
Proper citation: Gamgi (RRID:SCR_016116) Copy
Project whose goal is to improve health care and lessen the global burden of TBI through the discovery of causal relationships between treatments and clinically meaningful outcomes. InTBIR seeks to encourage well-designed, hypothesis-driven studies that include the collection of high quality data followed by rigorous statistical analysis.
Proper citation: International Initiative for Traumatic Brain Injury Research (RRID:SCR_016237) Copy
http://www.fishbrowser.org/software/LR_Gapcloser/
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 18th, 2023. Software that uses long reads to close gaps in the assemblies.
Proper citation: LR Gapcloser (RRID:SCR_016194) Copy
Hardware that is a electrical pulse generator.
Proper citation: Grass Stimulator Model S88 (RRID:SCR_016192) Copy
http://www.tdt.com/openex-suite.html
Software toolkit that is designed for configuration and control of TDT hardware. It can also display and analyze neurophysiology data., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: OpenEx (RRID:SCR_016230) Copy
https://hirnetwork.org/consortium/cbds
Consortium that is an independent research initiative of the Human Research Information Network (HIRN). It is using human tissues to discover highly specific biomarkers of beta cell injury in asymptomatic T1D and developing strategies to stop beta cell destruction early in the disease process.
Proper citation: HIRN Consortium on Beta Cell Death and Survival (RRID:SCR_016198) Copy
https://github.com/G-Node/nix/wiki
Software that defines a data model for annotated scientific datasets. It includes data together with metadata, and a corresponding file format based on HDF5 for storing and sharing such datasets.
Proper citation: NIX (RRID:SCR_016196) Copy
http://www.sanger.ac.uk/science/tools/seqtools
Software for sequence alignment that is a graphical dot-matrix program for detailed comparison of two sequences.
Proper citation: Dotter (RRID:SCR_016080) Copy
Standard specification for organizing and describing outputs of neuroimaging experiments. Used to organize and describe neuroimaging and behavioral data by neuroscientific community as standard to organize and share data. BIDS prescribes file naming conventions and folder structure to store data in set of already existing file formats. Provides standardized templates to store associated metadata in form of Javascript Object Notation (JSON) and tab-separated value (TSV) files. Facilitates data sharing, metadata querying, and enables automatic data analysis pipelines. System to curate, aggregate, and annotate neuroimaging databases. Intended for magnetic resonance imaging data, magnetoencephalography data, electroencephalography data, and intracranial encephalography data.
Proper citation: Brain Imaging Data Structure (BIDs) (RRID:SCR_016124) Copy
https://github.com/PacificBiosciences/FALCON
Software package for aligning long sequencing reads as a diploid-aware genome assembler. Used for assembling non-inbred or rearranged heterozygous genomes.
Proper citation: Falcon (RRID:SCR_016089) Copy
http://genome.imim.es/software/gfftools/GFF2APLOT.html
Software application to visualize the alignment of two genomic sequences together with their annotations. Used to generate print-quality images for comparative genome sequence analysis.
Proper citation: Gff2aplot (RRID:SCR_016128) Copy
http://www.localite.de/en/products/tms-navigator/
An instrument. Navigation system for transcranial magnetic stimulation (TMS).
Proper citation: Localite TMS Navigator (RRID:SCR_016126) Copy
Software for DNA and amino acid editing, database management, plasmid maps, It can also be used for restriction and ligation, alignments, sequencer data import, calculators, gel image display, PCR, and more.
Proper citation: Gentle (RRID:SCR_016127) Copy
https://www.singularity-hub.org
Database for singularity containers. It hosts container collections as well as articles about scientific advancements.
Proper citation: Singularity Hub (RRID:SCR_016248) Copy
https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate
Software package for sequence alignment of pairwise sequence comparison. Exonerate can be used to align sequences using many alignment models, exhaustive dynamic programming, or a variety of heuristics., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: Exonerate (RRID:SCR_016088) Copy
https://github.com/minepy/mictools
Software which combines the TICe and MICe measures into a two-step procedure that allows to identify relationships of various degrees of complexity in large datasets. TICe is used to perform an efficient high throughput screening of all the possible pairwise relationships and a permutation based approach is used to assess their significance.
Proper citation: MICtools (RRID:SCR_016121) Copy
http://emboss.sourceforge.net/apps/cvs/embassy/index.html#DOMALIGN
Software commands for Extra EMBOSS and protein domain alignment. The DOMALIGN programs were developed by Jon Ison and colleagues at MRC HGMP for their protein domain research. They are included as an EMBASSY package as a work in progress.
Proper citation: DOMALIGN (RRID:SCR_016085) Copy
Software toolkit for neuroelectrophysiology object modeling and data analysis in Python. Open source Python package for analysis of neuroelectrophysiology data.
Proper citation: nelpy (RRID:SCR_016209) Copy
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