dittoSeq - User Friendly Single-Cell and Bulk RNA Sequencing Visualization

A universal, user friendly, single-cell and bulk RNA sequencing visualization toolkit that allows highly customizable creation of color blindness friendly, publication-quality figures. dittoSeq accepts both SingleCellExperiment (SCE) and Seurat objects, as well as the import and usage, via conversion to an SCE, of SummarizedExperiment or DGEList bulk data. Visualizations include dimensionality reduction plots, heatmaps, scatterplots, percent composition or expression across groups, and more. Customizations range from size and title adjustments to automatic generation of annotations for heatmaps, overlay of trajectory analysis onto any dimensionality reduciton plot, hidden data overlay upon cursor hovering via ggplotly conversion, and many more. All with simple, discrete inputs. Color blindness friendliness is powered by legend adjustments (enlarged keys), and by allowing the use of shapes or letter-overlay in addition to the carefully selected dittoColors().

Last updated 24 days ago

softwarevisualizationrnaseqsinglecellgeneexpressiontranscriptomicsdataimport

6.78 score 2 packages 772 scripts 2.4k downloads

dittoViz - User Friendly Data Visualization

A comprehensive visualization toolkit built with coders of all skill levels and color-vision impaired audiences in mind. It allows creation of finely-tuned, publication-quality figures from single function calls. Visualizations include scatter plots, compositional bar plots, violin, box, and ridge plots, and more. Customization ranges from size and title adjustments to discrete-group circling and labeling, hidden data overlay upon cursor hovering via ggplotly() conversion, and many more, all with simple, discrete inputs. Color blindness friendliness is powered by legend adjustments (enlarged keys), and by allowing the use of shapes or letter-overlay in addition to the carefully selected dittoColors().

Last updated 3 months ago

color-blindnessggplot2visualization

4.60 score 8 stars 10 scripts 165 downloads

magmaR - R-Client for Interacting with the 'UCSF Data Library'

A client for interacting with 'magma', the data warehouse of the 'UCSF Data Library'. 'magmaR' includes functions for querying and downloading data from 'magma', in order to enable working with such data in R, as well as for uploading local data to 'magma'.

Last updated 10 months ago

2.60 score 20 scripts 250 downloads