Markdown for Publication "On the relation between input and output distributions of scRNA-seq experiments"
The file 'PublInputOutputMarkdown.rmd' is the markdown file used to generate the figures that are shown in the corresponding publication [1]. The data taken from Schwabe et al., 2020 [2] are contained in 'MeanVarData.rds'. The link to this file has to be properly updated in the markdown file before the corresponding section will run.
Some calculations are very time consuming such as the generation of the PCR distribution.
[1] Schwabe D, Falcke M. On the relation between input and output distributions of scRNA-seq experiments. Bioinformatics, Volume 38, Issue 5, 1 March 2022, Pages 1336–1343, doi: 10.1093/bioinformatics/btab841.
[2] Schwabe D, Formichetti S, Junker JP, Falcke M, Rajewsky N. The transcriptome dynamics of single cells during the cell cycle. Mol Syst Biol. 2020 Nov;16(11):e9946. doi: 10.15252/msb.20209946. PMID: 33205894.