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. 2018 Feb 14;8:3009. doi: 10.1038/s41598-018-20545-4

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© The Author(s) 2018

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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.

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Quantitative analysis of the in vivo bronchoscopic FCFM images showing differences during the course of infection. For each animal, three different image sequences were acquired per time point. Subsequently, both the number of cells and the percentage cell-positive area per frame were quantified and averaged for each image sequence, resulting in three values per mouse per time point. (A–D) Graphs representing the percentage cell-positive area and mean number of cells per frame quantified for the individual C. neoformans infected animals (green, n = 5) or C. gattii infected animals (blue, n = 5), respectively. (E) Graph representing the percentage hyphae-positive area calculated for the A. fumigatus infected animals (n = 5). Data are shown as mean ± SD. Differences over time were analysed using a Friedman test (repeated measures) or a Kruskal-Wallis test (in case of missing values due to animal death or failed acquisition) with Dunn’s multiple comparison post-test (*p-value < 0.05).