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| 1 |
-@Inbook{Hahne2016,
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- author="Hahne, Florian |
|
| 3 |
-and Ivanek, Robert", |
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| 4 |
- editor="Math{\'e}, Ewy
|
|
| 5 |
-and Davis, Sean", |
|
| 6 |
- title="Visualizing Genomic Data Using Gviz and Bioconductor", |
|
| 7 |
- bookTitle="Statistical Genomics: Methods and Protocols", |
|
| 8 |
- year="2016", |
|
| 9 |
- publisher="Springer New York", |
|
| 10 |
- address="New York, NY", |
|
| 11 |
- pages="335--351", |
|
| 12 |
- abstract="The Gviz package offers a flexible framework to visualize genomic data in the context of a variety of different genome annotation features. Being tightly embedded in the Bioconductor genomics landscape, it nicely integrates with the existing infrastructure, but also provides direct data retrieval from external sources like Ensembl and UCSC and supports most of the commonly used annotation file types. Through carefully chosen default settings the package greatly facilitates the production of publication-ready figures of genomic loci, while still maintaining high flexibility due to its ample customization options.", |
|
| 13 |
- isbn="978-1-4939-3578-9", |
|
| 14 |
- doi="10.1007/978-1-4939-3578-9_16", |
|
| 15 |
- url="https://doi.org/10.1007/978-1-4939-3578-9_16" |
|
| 16 |
-} |
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| 1 |
+# ----------------------------------------------------------- |
|
| 2 |
+# CITATION file created with {cffr} R package, v0.2.1
|
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| 3 |
+# See also: https://docs.ropensci.org/cffr/ |
|
| 4 |
+# ----------------------------------------------------------- |
|
| 5 |
+ |
|
| 6 |
+cff-version: 1.2.0 |
|
| 7 |
+message: 'To cite package "Gviz" in publications use:' |
|
| 8 |
+type: software |
|
| 9 |
+license: Artistic-2.0 |
|
| 10 |
+title: 'Gviz: Plotting data and annotation information along genomic coordinates' |
|
| 11 |
+version: 1.39.5 |
|
| 12 |
+doi: 10.1007/978-1-4939-3578-9_16 |
|
| 13 |
+abstract: Genomic data analyses requires integrated visualization of known genomic |
|
| 14 |
+ information and new experimental data. Gviz uses the biomaRt and the rtracklayer |
|
| 15 |
+ packages to perform live annotation queries to Ensembl and UCSC and translates this |
|
| 16 |
+ to e.g. gene/transcript structures in viewports of the grid graphics package. This |
|
| 17 |
+ results in genomic information plotted together with your data. |
|
| 18 |
+authors: |
|
| 19 |
+- family-names: Hahne |
|
| 20 |
+ given-names: Florian |
|
| 21 |
+- family-names: Durinck |
|
| 22 |
+ given-names: Steffen |
|
| 23 |
+- family-names: Ivanek |
|
| 24 |
+ given-names: Robert |
|
| 25 |
+ email: robert.ivanek@unibas.ch |
|
| 26 |
+ orcid: https://orcid.org/0000-0002-8403-056X |
|
| 27 |
+- family-names: Mueller |
|
| 28 |
+ given-names: Arne |
|
| 29 |
+- family-names: Lianoglou |
|
| 30 |
+ given-names: Steve |
|
| 31 |
+- family-names: Tan |
|
| 32 |
+ given-names: Ge |
|
| 33 |
+- family-names: Parsons |
|
| 34 |
+ given-names: Lance |
|
| 35 |
+- family-names: Pai |
|
| 36 |
+ given-names: Shraddha |
|
| 37 |
+preferred-citation: |
|
| 38 |
+ type: book |
|
| 39 |
+ title: 'Statistical Genomics: Methods and Protocols' |
|
| 40 |
+ authors: |
|
| 41 |
+ - family-names: Hahne |
|
| 42 |
+ given-names: Florian |
|
| 43 |
+ - family-names: Ivanek |
|
| 44 |
+ given-names: Robert |
|
| 45 |
+ email: robert.ivanek@unibas.ch |
|
| 46 |
+ orcid: https://orcid.org/0000-0002-8403-056X |
|
| 47 |
+ editors: |
|
| 48 |
+ - family-names: Math\'e |
|
| 49 |
+ given-names: Ewy |
|
| 50 |
+ - family-names: Davis |
|
| 51 |
+ given-names: Sean |
|
| 52 |
+ section: Visualizing Genomic Data Using Gviz and Bioconductor |
|
| 53 |
+ year: '2016' |
|
| 54 |
+ publisher: |
|
| 55 |
+ name: Springer New York |
|
| 56 |
+ address: New York, NY |
|
| 57 |
+ isbn: 978-1-4939-3578-9 |
|
| 58 |
+ doi: 10.1007/978-1-4939-3578-9_16 |
|
| 59 |
+ url: http://dx.doi.org/10.1007/978-1-4939-3578-9_16 |
|
| 60 |
+ start: '335' |
|
| 61 |
+ end: '351' |
|
| 62 |
+repository: https://bioconductor.org/ |
|
| 63 |
+repository-code: https://github.com/ivanek/Gviz |
|
| 64 |
+url: https://github.com/ivanek/Gviz |
|
| 65 |
+contact: |
|
| 66 |
+- family-names: Ivanek |
|
| 67 |
+ given-names: Robert |
|
| 68 |
+ email: robert.ivanek@unibas.ch |
|
| 69 |
+ orcid: https://orcid.org/0000-0002-8403-056X |
