Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
http://www.evoio.org/wiki/MIAPA
Central hub for resources related to developing and deploying a Minimal Information for a Phylogenetic Analysis (MIAPA) standard.
Proper citation: MIAPA (RRID:SCR_003777) Copy
http://sourceforge.net/projects/seqexpress/
A cross-platform software that estimates gene/isoform expression level via mRNA-Seq data. SeqExpress exams the Sequencing bias in mRNA-Seq and correct it to get more accurate estimation.
Proper citation: SeqExpress (RRID:SCR_004013) Copy
http://andestools.sourceforge.net/
Software library and a suite of applications, written in Perl and R, for deep sequencing statistical analyses.
Proper citation: ANDES (RRID:SCR_002791) Copy
http://sourceforge.net/projects/glprobs/
Software implementing a simple and effective approach to improve the accuracy of multiple sequence alignment.
Proper citation: GLProbs (RRID:SCR_002739) Copy
http://sourceforge.net/projects/bio-rainbow/
Software developed to provide an ultra-fast and memory-efficient solution to clustering and assembling short reads produced by RAD-seq.
Proper citation: Rainbow (RRID:SCR_002724) Copy
A fast and versatile Open Source docking software program that can be used to dock small molecules against proteins and nucleic acids.
Proper citation: rDock (RRID:SCR_002838) Copy
http://sourceforge.net/projects/fas-dpd/
Software program to design degenerate primers for PCR.
Proper citation: FAS-DPD (RRID:SCR_003068) Copy
http://sourceforge.net/projects/salt1/
Software that can accurately and sensitivity classify short reads of next-generation sequencing (NGS) into protein domain families. It is based on profile HMM and a supervised graph contribution algorithm. Compared to existing tools, it has high sensitivity and specificity in classifying short reads into their native domain families.
Proper citation: SALT (RRID:SCR_003187) Copy
http://sourceforge.net/projects/xorro-overlap/
Efficient paired-read overlap software program for use with Illumina sequencing.
Proper citation: XORRO (RRID:SCR_003181) Copy
http://compbio.cs.sfu.ca/software-novelseq
Software pipeline to detect novel sequence insertions using high throughput paired-end whole genome sequencing data.
Proper citation: NovelSeq (RRID:SCR_003136) Copy
http://mrcanavar.sourceforge.net/
Copy number caller that analyzes the whole-genome next-generation sequence mapping read depth to discover large segmental duplications and deletions. It also has the capability of predicting absolute copy numbers of genomic intervals.
Proper citation: mrCaNaVaR (RRID:SCR_003135) Copy
http://sourceforge.net/projects/saskprimerfs/
Software pipeline for designing gene family specific PCR primers. It infers intronic regions of a target species and design for them by utilizing DNA sequence information from a reference organism.
Proper citation: SaskPrimerFS (RRID:SCR_003159) Copy
Neuroimaging database designed to allow simple importing, searching, and sharing of imaging data. NIDB also provides automated pipelining with importing of results back into NIDB which can be searched along with imaging meta data.
Proper citation: NIDB - Neuroinformatics Database (RRID:SCR_002488) Copy
http://scralyze.sourceforge.net
A powerful software for model-based analysis of peripheral psychophysiology (e.g. skin conductance, heart rate, pupil size etc.). General linear modelling and dynamic causal modelling of these signals provide for inference on neural states/processes. SCRalyze includes flexible data import and display, statistical inference and results display and export. Easy programming of add-ons for new data formats, signal channels, and models.
Proper citation: SCRalyze (RRID:SCR_002542) Copy
http://sourceforge.net/projects/phaccs/
Software that gives estimates of the structure and diversity of uncultured viral communities using metagenomic information.
Proper citation: PHACCS (RRID:SCR_001232) Copy
Quality assessment software tool for evaluating and comparing genome assemblies. It works both with and without a given reference genome. It produces many reports, summary tables and plots.
Proper citation: QUAST (RRID:SCR_001228) Copy
http://sourceforge.net/projects/mutascope/
Software suite to analyze data from high throughput sequencing of PCR amplicons, with an emphasis on normal-tumor comparison for the accurate and sensitive identification of low prevalence mutations.
Proper citation: Mutascope (RRID:SCR_001265) Copy
http://sourceforge.net/projects/kanalyze/
A Java toolkit designed to convert DNA and RNA sequences into k-mers.
Proper citation: KAnalyze (RRID:SCR_001323) Copy
Software resource for multiple whole genome alignment. It uses Nucmer, a custom graph-based segmentation procedure, for pairwise alignment, and the Seqan:TCoffee's multiple alignment strategy.
Proper citation: Mugsy (RRID:SCR_001414) Copy
https://sourceforge.net/p/obo/mailman/message/59165700/
A structured controlled vocabulary of the anatomy of Drosophila melanogaster. These ontologies are query-able reference sources for information on Drosophila anatomy and developmental stages. They also provide controlled vocabularies for use in annotation and classification of data related to Drosophila anatomy, such as gene expression, phenotype and images. They were originally developed by FlyBase, who continue to maintain them and have used them for over 200,000 annotations of phenotypes and expression. Extensive use of synonyms means that, given a suitably sophisticated autocomplete, users can find relevant content by searching with almost any anatomical term they find in the literature. These ontologies are developed in the web ontology language OWL2. Their extensive formalization in OWL can be used to drive sophisticated query systems.
Proper citation: Drosophila anatomy and development ontologies (RRID:SCR_001607) Copy
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the dkNET Resources search. From here you can search through a compilation of resources used by dkNET and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that dkNET has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on dkNET then you can log in from here to get additional features in dkNET such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
You can save any searches you perform for quick access to later from here.
We recognized your search term and included synonyms and inferred terms along side your term to help get the data you are looking for.
If you are logged into dkNET you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the sources that were queried against in your search that you can investigate further.
Here are the categories present within dkNET that you can filter your data on
Here are the subcategories present within this category that you can filter your data on
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
Email: info_at_ dknet.org
