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 PMID:32745185  

pyGenomeTracks: reproducible plots for multivariate genomic datasets.

Lucille Lopez-Delisle | Leily Rabbani | Joachim Wolff | Vivek Bhardwaj | Rolf Backofen | Björn Grüning | Fidel Ramírez | Thomas Manke
Bioinformatics (Oxford, England) | 2021

Generating publication ready plots to display multiple genomic tracks can pose a serious challenge. Making desirable and accurate figures requires considerable effort. This is usually done by hand or using a vector graphic software.

Pubmed ID: 32745185

Research resources used in this publication

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This is a list of tools and resources that we have found mentioned in this publication.


Galaxy (tool)

RRID:SCR_006281

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.

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Mass spectrometry imaging workbench (tool)

RRID:SCR_017410

Software tool for analysis of mass spectrometry imaging data implemented in Galaxy framework. Provides options to analyze mass spectrometry imaging data in imzML file format, including quality control, visualization, preprocessing, statistical analysis, image co-registration and feature identification.Galaxy docker container for mass spectrometry imaging.

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Kc167 (tool)

RRID:CVCL_Z834

Cell line Kc167 is a Spontaneously immortalized cell line with a species of origin Drosophila melanogaster (Fruit fly)

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