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# Data file manifest for the EmptyDrops paper

## Overview

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This repository contains data files for the manuscript **Distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data**
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by [Lun _et al._ (2018)](https://doi.org/10.1101/234872).

## Placenta-related files

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The `placenta_vento-tormo.zip` file contains 10X count matrices from 6 runs of placental tissue from [Vento-Tormo _et al._ (2018)](https://doi.org/10.1038/s41586-018-0698-6).
Note that 5 placentas were obtained in the study but one sample was run on the 10X machine twice.
Inside the zip file, each subdirectory contains a count matrix for one run prior to any CellRanger cell calling.
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The `cell_origin.csv` file contains the individual of origin corresponding to each droplet.
These were identified from SNPs in the transcriptome, by matching the alleles to either the fetus or mother.

All files were provided by Tomas Gomes (Teichmann group).