Tools   Select Another Resource Report Type

https://autodocksuite.scripps.edu/adt/

Software graphical user interface to help to set up which bonds will treated as rotatable in the ligand and to analyze dockings. Used for automated docking with selective receptor flexibility. Designed to predict how small molecules, such as substrates or drug candidates, bind to receptor of known 3D structure.

Proper citation: AutoDockTools (RRID:SCR_026401) Copy   

•   Source: SciCrunch Registry

https://github.com/ncbi/fcs-gx

Software Foreign Contamination Screening - GX source code. Part of NCBI’s Foreign Contamination Screen (FCS) tool suite, optimized to identify and remove contaminant sequences in new genomes.

Proper citation: FCS-GX (RRID:SCR_026367) Copy   

•   Source: SciCrunch Registry

https://daburresearch.in

Dabur Research Foundation (DRF), established in 1979, is Indian Contract Research Organization offering comprehensive preclinical services in Drug Discovery and Development. Focused on identifying potential lead molecules and developing drugs to conducting IND enabling studies.

Proper citation: Dabur Research Foundation (RRID:SCR_026375) Copy   

•   Source: SciCrunch Registry

https://synbio-tech.com/

DNA synthesis company provides comprehensive services including gene synthesis, protein expression, gene editing, etc., supporting one-stop solutions for global users.

Proper citation: Synbio Technologies (RRID:SCR_026374) Copy   

•   Source: SciCrunch Registry

http://qualimap.conesalab.org/

Software platform-independent application written in Java and R that provides both Graphical User Inteface and command-line interface to facilitate quality control of alignment sequencing data and its derivatives like feature counts. Used for advanced multi-sample quality control for high-throughput sequencing data.

Proper citation: Qualimap 2 (RRID:SCR_026258) Copy   

•   Source: SciCrunch Registry

https://www.biosynsis.com/recombinant-protein-expression-service.html

Biotechnology company specialises in providing protein expression services. Services include all steps from gene expression and purification to protein expression and purification, including selection and optimization of multiple expression platforms including bacterial, yeast, insect cell, and mammalian cell platforms.

Proper citation: CD Biosynsis (RRID:SCR_026386) Copy   

•   Source: SciCrunch Registry

https://www.acetherapeutics.com/psychiatry/psychiatric-biomarker-testing-services.html

Ace Therapeutics offers biomarker services for anti-psychotic drug development. Provides psychiatric biomarker testing services. Can perform experiments from variety of biological samples: tissues, cell lines, and RNA.

Proper citation: Ace Therapeutics (RRID:SCR_026387) Copy   

•   Source: SciCrunch Registry

https://www.brainlab.com/surgery-products/overview-neurosurgery-products/

Privately held German medical technology company headquartered in Munich, Bavaria. Brainlab develops software and hardware for radiotherapy and radiosurgery, and the surgical fields of neurosurgery, ENT and craniomaxillofacial, spine surgery, and traumatic interventions. Brainlab software and hardware devices create and enhance data to improve critical surgeries, radiosurgery treatments and operating room efficiency.

Proper citation: BrainLab (RRID:SCR_026474) Copy   

•   Source: SciCrunch Registry

https://github.com/mwess/greedyfhist

Algorithm for registration of stained fresh frozen serial images. Used for registration of stained histology images.

Proper citation: GreedyFHist (RRID:SCR_026477) Copy   

•   Source: SciCrunch Registry

https://github.com/wilkelab/ggtext/

Software R package that enhances text rendering in ggplot2 by allowing the use of Markdown, HTML, and rich text formatting for annotations, labels, and titles in plots.

Proper citation: ggtext (RRID:SCR_026470) Copy   

•   Source: SciCrunch Registry

https://github.com/wdecoster/chopper

Software tool that combines the utility of NanoFilt and NanoLyse, for filtering sequencing reads based on quality, length, and contaminating sequences, delivers 7-fold speed up compared to the Python implementation, making use of the Rust-Bio library and Rust bindings to minimap2.

Proper citation: chopper (RRID:SCR_026486) Copy   

•   Source: SciCrunch Registry

https://archive.ics.uci.edu/

Collection of databases, domain theories, and data generators that are used by machine learning community for empirical analysis of machine learning algorithms. Datasets approved to be in the repository will be assigned Digital Object Identifier (DOI) if they do not already possess one. Datasets will be licensed under a Creative Commons Attribution 4.0 International license (CC BY 4.0) which allows for the sharing and adaptation of the datasets for any purpose, provided that the appropriate credit is given

Proper citation: UCI Machine Learning Repository (RRID:SCR_026571) Copy   

•   Source: SciCrunch Registry

https://github.com/spreka/biomagdsb

Software tool as parameter-free deep learning framework for nucleus segmentation using image style transfer. Cell segmentation tool.

Proper citation: NucleAIzer (RRID:SCR_026500) Copy   

•   Source: SciCrunch Registry

https://github.com/snowformatics/siFi21-?tab=readme-ov-file

Software tool for RNAi-target design and off-target prediction. Used for long double-stranded RNAi-target design and off-target prediction.

Proper citation: siFi (RRID:SCR_026556) Copy   

•   Source: SciCrunch Registry

https://github.com/Martin-Fahrenberger/GTestimate

Software R package for scRNA-seq normalization. Uses Simple Good-Turing estimator for the per cell relative gene expression estimation.

Proper citation: GTestimate (RRID:SCR_026562) Copy   

•   Source: SciCrunch Registry

https://github.com/NC4Lab/NC4gate

Code for testing and operating NC4gate modules of modular gate system for autonomous control of rodent behavior. Fully customizable gate system that can be used in behavioral experiments involving rodent mazes (T-maze, Y-maze, radial arm, etc.).

Proper citation: NC4gate (RRID:SCR_026445) Copy   

•   Source: SciCrunch Registry

https://github.com/agshumate/Liftoff

Software genome annotation lift-over tool capable of mapping genes between two assemblies of the same or closely related species. Aligns genes from reference genome to target genome and finds the mapping that maximizes sequence identity while preserving the structure of each exon, transcript and gene. Used for accurate mapping of gene annotations.

Proper citation: Liftoff (RRID:SCR_026535) Copy   

•   Source: SciCrunch Registry

https://igit.informatik.htw-dresden.de/aagef650/spheroidsegdedeb

Software minimal tool for segmentation of irradiated tumor spheroids using optimized U-Net.

Proper citation: SpheroidSegDeDeb (RRID:SCR_026409) Copy   

•   Source: SciCrunch Registry

https://www.microchip.com/en-us/tools-resources/develop/mplab-x-ide

Software program from Microchip, serving as a comprehensive, expandable platform for developing Microchip microcontroller applications, with many integrated tools like MPLAB Code Configurator (MCC) and MPLAB XC Compilers (free versions). Incorporates tools to discover, configure, develop, debug and qualify embedded designs for most of microcontrollers and digital signal controllers. MPLAB X IDE works seamlessly with the MPLAB development ecosystem of software and tools.

Proper citation: mplab x ide (RRID:SCR_027844) Copy   

•   Source: SciCrunch Registry

https://pypi.org/project/llm-pathway-curator/

Software quality-assurance layer for pathway enrichment interpretation that converts enrichment term lists into context-conditioned, evidence-linked, schema-bounded claims and assigns PASS/ABSTAIN/FAIL via predefined, rule-based audit gates (stability, context validity stress tests, evidence-link integrity, and contradiction checks), producing decision-grade reports with audit logs. The LLM is confined to proposal-only steps; final decisions are mechanical and reproducible.

Proper citation: LLM-PathwayCurator (RRID:SCR_027964) Copy   

•   Source: SciCrunch Registry