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. 2022 Jun 10;23:434. doi: 10.1186/s12864-022-08601-w

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© The Author(s) 2022

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 2 — Enhanced visualization spatialLIBD features: Using the example spatialLIBD web application from https://libd.shinyapps.io/spatialLIBD_Human_Lymph_Node_10x/ we illustrate some recent enhancements. The data is from the human lymph node example dataset by 10x Genomics. A Expression of the POLR2A gene with a point size of 2.25 and using the reversed magma colorblind-friendly continuous scale: low values are in white. There are nine color scales options and each can be reversed. The transparency of the spots can be controlled as well. B A side-by-side view of the histology and the graph-based clusters produced by Space Ranger. The original lowres image from Space Ranger has been edited with spatialLIBD: enhance, normalize, equalize, transparent color pink, and transparent fuzz 40