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http://www.studylog.com

Commerciall organization to develop study protocols collaboratively to run and manage animal research studies for academic, government, biotech and pharmaceutical labs. Provides services, including product installation and configuration, user training, customization services and ongoing support.

Proper citation: Studylog (RRID:SCR_016682) Copy   

•   Source: SciCrunch Registry

https://github.com/kstreet13/slingshot

Software R package for identifying and characterizing continuous developmental trajectories in single cell data. Cell lineage and pseudotime inference for single-cell transcriptomics.

Proper citation: Slingshot (RRID:SCR_017012) Copy   

•   Source: SciCrunch Registry

Ratings or validation data are available for this resource

https://github.com/BodenmillerGroup/imctools

Software Python package that implements preprocessing pipeline for imaging mass cytometry data. Can convert IMC raw files to tiff files that are used as inputs into CellProfiller, Ilastik, Fiji etc.

Proper citation: imctools (RRID:SCR_017132) Copy   

•   Source: SciCrunch Registry

https://github.com/neuropoly/qMRLab

Software for quantitative MR image analysis, simulation, and protocol optimization. It aims to provide the community with a tool for data fitting, plotting, simulation and protocol optimization for a variety of different quantitative models.

Proper citation: qMRLab (RRID:SCR_016256) Copy   

•   Source: SciCrunch Registry

https://github.com/colinvaz/nmf-toolbox

Software toolbox for performing Non-negative Matrix Factorization (NMF) and several variants. Used to factorize one non negative matrix into two non negative factors, that is basis matrix and coefficient matrix. Applied in bioinformatics as data mining approach.

Proper citation: NMF Toolbox (RRID:SCR_017069) Copy   

•   Source: SciCrunch Registry

http://www.usccn.org/Pages/default.aspx

Research coordination network for ex situ Microbial Germplasm Collections to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of humankind by providing opportunities for US culture collection workers to engage with each other and with the broader culture collection community.

Proper citation: U.S. Culture Collection Network (USCCN) (RRID:SCR_016777) Copy   

•   Source: SciCrunch Registry

https://sils.fnwi.uva.nl/bcb/Object-Image/object-image.html

Image analysis software package that allows non-destructive image marking, input for further image processing, and marking the results of automatic measurements. Object-Image integrates measurements, macros, graphical objects and image names in a closed unit called 'object file' so that it reduces file clutter.

Proper citation: Object-Image (RRID:SCR_015720) Copy   

•   Source: SciCrunch Registry

http://lincs.hms.harvard.edu/

Center that is part of the NIH Library of Integrated Network-based Cellular Signatures (LINCS) Program. Its goals are to collect and disseminate data and analytical tools needed to understand how human cells respond to perturbation by drugs, the environment, and mutation.

Proper citation: HMS LINCS Center (RRID:SCR_016370) Copy   

•   Source: SciCrunch Registry

https://drugs.ncats.io/

Portal of NCATS (the National Center for Advancing Translational Sciences) for drug development information including:US approved drugs, marketed drugs, investigational drugs. Provides manually curated data supplied by the FDA and private companies. Provides drugs marketing and regulatory status, drug ingredient definitions, biological activity and clinical use.

Proper citation: Inxight (RRID:SCR_016490) Copy   

•   Source: SciCrunch Registry

http://www.med.umich.edu/mgpc/

Center whose goal is to investigate signal transduction mechanisms regulating homeostasis and GI disorders. Their approach includes studies on genetics and gene regulation, cellular signaling pathways, receptors and ion channels.

Proper citation: University of Michigan Center for Gastrointestinal Research (RRID:SCR_015605) Copy   

•   Source: SciCrunch Registry

http://rc2resource.scripps.edu

Database portal for a project that aims to discover and characterize new molecular pathways that can be targeted pharmacologically to revert obesity-linked adipocyte defects that drive systemic insulin resistance and type 2 diabetes. It works to identify in tandem physiologically-relevant proteins and chemical tools in order to expedite their functional annotation and therapeutic validation.

Proper citation: Chemoproteomic identification and therapeutic validation of proteins of metabolic significance (RRID:SCR_015847) Copy   

•   Source: SciCrunch Registry

https://nels.bioinfo.no

Web portal for the administration of Norwegian e-Infrastructure for Life Sciences. Enables Norwegian life scientists and their international collaborators to store, share, archive, and analyse their genomics scale data. NeLS is one of the packages of the ELIXIR.NO project.

Proper citation: NeLS (RRID:SCR_016301) Copy   

•   Source: SciCrunch Registry

https://www.ars-grin.gov/npgs/

Cooperative effort by U.S. state and federal government and private organizations to preserve the genetic diversity of plants. The NPGS aids scientists and the need for genetic diversity by acquiring, preserving, evaluating, documenting and distributing crop germplasm. The NPGS is managed by the Agricultural Research Service (ARS), the in-house research agency of the United States Department of Agriculture (USDA). Funding for the NPGS comes primarily through appropriations from the U.S. Congress.

Proper citation: National Plant Germplasm System (NPGS) (RRID:SCR_016785) Copy   

•   Source: SciCrunch Registry

http://www.vilber.de/en/products/analysis-software/capt-software/

Software for molecular weight, quantification of bands, colony counting and distance calculation in Vilber Lourmat gel documentation imaging systems. Used in molecular biology laboratories.

Proper citation: CAPT (RRID:SCR_016305) Copy   

•   Source: SciCrunch Registry

http://www.bioinformatics.org/xacg/wiki/

Molecular computing based on XNA-built alphabets.

Proper citation: Xenonucleic Acid Computing Group Wiki Template (RRID:SCR_016905) Copy   

•   Source: SciCrunch Registry

https://www.niaid.nih.gov/about/cyber-infrastructure-computational-biology-contacts

Office of Cyber Infrastructure and Computational Biology of NIAID.

Proper citation: OCICB (RRID:SCR_016597) Copy   

•   Source: SciCrunch Registry

http://www.biosoft.com/w/assayzap.htm

Software tool as universal assay calculator for RIA, ELISA, IRMA, colorimetric or any other type of assay by Biosoft. Maintains record for each assay, and enables standard curve and QCs to be compared and adjusted. Can process data from 96 and 384-well plate readers in any order.

Proper citation: AssayZap (RRID:SCR_016991) Copy   

•   Source: SciCrunch Registry

http://doa.nubic.northwestern.edu/pages/search.php

Project portal for a collaborative database aiming to provide a comprehensive annotation to human genome.It uses the computable, controlled vocabulary of Disease Ontology (DO) and NCBI Gene Reference Into Function (GeneRIF).

Proper citation: DOAF (RRID:SCR_015666) Copy   

•   Source: SciCrunch Registry

https://www.ncbi.nlm.nih.gov/UniGene/help.cgi?item=DDD

Software tool for comparing EST profiles in order to identify genes with significantly different expression levels.

Proper citation: Digital Differential Display (DDD) (RRID:SCR_016638) Copy   

•   Source: SciCrunch Registry

https://github.com/eead-csic-compbio/split_pairs

Software for processing NGS sequence reads in FASTQ and FASTA formats. split_pairs.pl is suited particularly for the task of sorting pair end reads and for modifying their headers with Perl-style regular expressions.

Proper citation: split_pairs.pl (RRID:SCR_015707) Copy   

•   Source: SciCrunch Registry