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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Deeptools Resource Report Resource Website 1000+ mentions |
Deeptools (RRID:SCR_016366) | software toolkit, data processing software, software application, data analysis software, software resource, data visualization software | Python based tools to process, visualize and analyse high-throughput sequencing data, such as ChIP-seq, RNA-seq or MNase-seq. Implemented within Galaxy framework. Used to perform complete bioinformatic workflows ranging from quality controls and normalizations of aligned reads to integrative analyses, including clustering and visualization approaches. | process, visualize, analysis, sequencing, data, ChIP-seq, RNA-seq, MNase-seq, quality, control, normalization, aligned, read, clustering, bioinformatic | works with: Galaxy | German Research Foundation SFB 992; German Epigenome Programme DEEP 01KU1216G |
PMID:27079975 | Free, Available for download, Freely available | http://deeptools.ie-freiburg.mpg.de/ | SCR_016366 | 2026-08-15 11:25:19 | 2806 | |||||||
|
Galaxy Resource Report Resource Website 5000+ mentions |
Galaxy (RRID:SCR_006281) | Galaxy | production service resource, data analysis service, portal, data or information resource, analysis service resource, service resource, organization portal | Open, web-based platform providing bioinformatics tools and services for data intensive genomic research. Platform may be used as a service or installed locally to perform, reproduce, and share complete analyses. Galaxy automatically tracks and manages data provenance and provides support for capturing the context and intent of computational methods. Galaxy Community has created Galaxy instances in many different forms and for many different applications including Galaxy servers, cloud services that support Galaxy instances, and virtual machines and containers that can be easily deployed for your own server.The Galaxy team is a part of BX at Penn State, and the Biology and Mathematics and Computer Science departments at Emory University.Training Infrastructure as a Service (TIaaS) is a service offered by some UseGalaxy servers to specifically support training use cases. | bioinformatics, workflow, analysis, data sharing, visualization, cloud, genomics, metagenomics, next-generation sequencing, platform, data set, genaddiction tool |
is used by: Nebula lists: PathwayMatcher is listed by: OMICtools is listed by: 3DVC is listed by: Debian is listed by: SoftCite is related to: ABrowse is related to: TRAMS is related to: Stem Cell Commons is related to: Stem Cell Discovery Engine is related to: CardioVascular Research Grid (CVRG) is related to: rQuant is related to: SnpEff is related to: Binding and Expression Target Analysis is related to: PIPE-CLIP is related to: Stem Cell Discovery Engine is related to: Computational Genomics Analysis Tools is related to: SpliceTrap is related to: SMAGEXP is related to: CandiMeth is related to: ewas-galaxy is related to: CLIP-Explorer is related to: Galactic Circos is related to: Tool recommender system in Galaxy is related to: NanoGalaxy is related to: Cistrome is related to: Training Infrastructure as a Service has parent organization: Pennsylvania State University is parent organization of: kmer-SVM works with: Deeptools |
Huck Institutes for the Life Sciences ; Pennsylvania Department of Health ; NSF DBI0850103; NHGRI HG004909; NHGRI HG005133; NHGRI HG005542; Institute for CyberScience at Pennsylvania State University ; Pennsylvania ; USA ; Johns Hopkins University |
PMID:20738864 PMID:20069535 PMID:16169926 |
Free, Freely available | nlx_151896, OMICS_01141 | https://usegalaxy.org/, https://sources.debian.org/src/galaxy/ | SCR_006281 | The Galaxy Project, Galaxy Project | 2026-08-15 11:23:18 | 6255 |
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