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The function cellranger count from Cell Ranger was used to transform the fastq files with the parameter expect-cells set to 1000, 2000, 5000 or 10 000. The reference genome was the mm10 available at Illumina Cell Ranger web page. Next, we used cellranger mat2csv to generate the UMI matrix.
Copyright and License information: ©2020 The Author(s) 2019. Published by Oxford University Press on behalf of NAR Genomics and Bioinformatics.
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact moc.puo@snoissimrep.slanruoj
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