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https://canadu.com/

Software tool for learning fundamentals of RSLogix ladder logic programming.

Proper citation: LogiXPro (RRID:SCR_021978) Copy   

•   Source: SciCrunch Registry

http://www.plafornea.com.ar/

Software allows estimating growth and production at stand level of main forest species implanted in Argentine Mesopotamia such as Pino taeda, Eucalyptus grandis, Pino elliottii and Araucaria angustifolia. Areas for which models were adjusted correspond to province of Misiones, northeast of Corrientes and Concordia in province of Entre Ríos.

Proper citation: PlaForNEA (RRID:SCR_022027) Copy   

•   Source: SciCrunch Registry

https://www.coolled.com/products/pe-300ultra/

Highly controllable fluorescence microscopy Illumination System which offers broad spectrum LED illumination for imaging most common fluorophores. System offers precise control over wavelength irradiance and shuttering. Used for LED microscope lighting.

Proper citation: CoolLED: pE-300ultra (RRID:SCR_021972) Copy   

•   Source: SciCrunch Registry

https://simulabeta.sourceforge.io/

Software tool as simulation program for insulin glucose feedback control. Based on nonlinear MiMe-NoCoDI model.

Proper citation: SimulaBeta (RRID:SCR_021900) Copy   

•   Source: SciCrunch Registry

https://osf.io/xfpn4/

MDAR Framework establishes minimum set of requirements in transparent reporting applicable to studies in life sciences. MDAR checklist is tool for authors, editors and others seeking to adopt MDAR framework for transparent reporting in manuscripts and other outputs and designed to provide harmonizing principle for reporting requirements currently in use at various journals.

Proper citation: MDAR (RRID:SCR_022038) Copy   

•   Source: SciCrunch Registry

https://github.com/QZH2022/germline_flow

High performance of GPU accelerated variant calling tool in genome data analysis.

Proper citation: germline flow (RRID:SCR_021906) Copy   

•   Source: SciCrunch Registry

https://github.com/vlink/marge

Software package that integrates genome wide genetic variation with epigenetic data to identify collaborative transcription factor pairs. Optimized to work with chromatin accessibility assays such as ATAC-seq or DNase I hypersensitivity, as well as transcription factor binding data collected by ChIP-seq. Used to identify combinations of cell type specific transcription factors while simultaneously interpreting functional effects of non-coding genetic variation.

Proper citation: Motif Mutation Analysis for Regulatory Genomic Elements (RRID:SCR_021902) Copy   

•   Source: SciCrunch Registry

http://bioinfo.jialab-ucr.org/CancerMIRNome/

Web server for cancer miRNome interactive analysis and visualization based on human miRNome data of cancer types from The Cancer Genome Atlas, and public cancer circulating miRNome profiling datasets from NCBI Gene Expression Omnibus and ArrayExpress. Comprehensive database for interactive analysis and visualization of miRNA expression profiles.

Proper citation: CancerMIRNome (RRID:SCR_022092) Copy   

•   Source: SciCrunch Registry

http://ceumass.eps.uspceu.es/

Software tool for searching metabolites in different databases including Kegg, HMDB, LipidMaps, Metlin, NP Atlas, KNApSAcK, MINE and in house library. Designed for searches through experimental masses obtained from mass spectrometry techniques. Metabolite annotation tool that uses expert system to score putative annotation based on analytical information acquired under different configurations.

Proper citation: CEU Mass Mediator (RRID:SCR_022090) Copy   

•   Source: SciCrunch Registry

https://github.com/mourisl/Rcorrector

Software tool as kmer based error correction method for RNAseq data. Can also be applied to other types of sequencing data where read coverage is nonuniform, such as single cell sequencing. Used for error correction for Illumina RNAseq reads.

Proper citation: Rcorrector (RRID:SCR_022011) Copy   

•   Source: SciCrunch Registry

https://www.microbialtec.com/aerobic-cultivation.html

Aerobic cultivation services to culture various microorganisms that can be isolated from readily available sources.

Proper citation: Creative Biogene Aerobic Cultivation Service Resource (RRID:SCR_022099) Copy   

•   Source: SciCrunch Registry

https://www.bcgsc.ca/resources/software/ntcard

Software tool for estimating k-mer coverage histogram of genomics data. Streaming algorithm for estimating frequencies of k-mers in genomics datasets.

Proper citation: ntCard (RRID:SCR_022010) Copy   

•   Source: SciCrunch Registry

https://www.microbialtec.com/strain-anaerobic-culture.html

Service for anaerobic bacteria cultivation and culture using variety of culture media and culture conditions. Includes collection, strain cultivation, isolation, identification and strain preservation.

Proper citation: Creative Biogene Strain Anaerobic Culture Service Resource (RRID:SCR_022097) Copy   

•   Source: SciCrunch Registry

https://plueckthun.bioc.uzh.ch/antibody

AAAAA aims to become the ultimate tool for antibody structural analysis, modelling and engineering.

Proper citation: AHo’s Amazing Atlas of Antibody Anatomy (RRID:SCR_022095) Copy   

•   Source: SciCrunch Registry

http://connect-tbi.med.upenn.edu/

Portal for traumatic brain injury data. Common Data Elements (CDEs) and Unique Data Elements (UDEs) for digital neuropathological data and clinical data that will be collected in all CONNECT-TBI center projects. Goal is to establish multi-center, digital neuropathological data and clinical data reporting network with case accrual from each center project. Collected neuropathological data and clinical data available by sharing with center site investigators approved by Administrative Core and by submitting into FITBIR. Central TBI data repository by collecting digital neuropathological data and clinical data from TBI cases and normal controls at each center and posting library of their holdings.

Proper citation: Connect TBI (RRID:SCR_022009) Copy   

•   Source: SciCrunch Registry

https://github.com/neuronanalyser/neuronanalyser

Software analysis toolkit for tracking blobs and extracting intensity values from imaging data, designed for use with ratiometric fluorescent sensors.

Proper citation: Neuronanalyser (RRID:SCR_022007) Copy   

•   Source: SciCrunch Registry

https://www.plumed.org/

Open source, community developed library that provides range of different methods, which include enhanced sampling algorithms, free energy methods, tools to analyze vast amounts of data produced by molecular dynamics simulations. PLUMED 2 is complete rewrite of the code in object oriented programming language C plus plus. This new version introduces greater flexibility and greater modularity, which both extends its core capabilities and makes it far easier to add new methods and CVs. It also has simpler interface with the MD engines and provides single software library containing both tools and core facilities.

Proper citation: PLUMED 2 (RRID:SCR_021952) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/package=StAMPP

Software R package for statistical analysis of mixed ploidy populations.Used for calculation of population structure and differentiation based on single nucleotide polymorphism genotype data from populations of any ploidy level, and/or mixed ploidy levels.

Proper citation: StAMPP (RRID:SCR_022022) Copy   

•   Source: SciCrunch Registry

https://cran.r-project.org/package=hierfstat

Software R package for estimation and tests of hierarchical F statistics.Used to estimate hierarchical F-statistics from haploid or diploid genetic data with any numbers of levels in hierarchy.Intended for analysis of population structure using genetic markers.

Proper citation: hierfstat (RRID:SCR_022021) Copy   

•   Source: SciCrunch Registry

http://cmpg.unibe.ch/software/BayeScan/index.html

Software tool to identify candidate loci under natural selection from genetic data, using differences in allele frequencies between populations.

Proper citation: BayeScan (RRID:SCR_022018) Copy   

•   Source: SciCrunch Registry