English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT

Released

Journal Article

PROSSTT: Probabilistic simulation of single-cell RNA-seq data for complex differentiation processes.

MPS-Authors
/persons/resource/persons128572

Söding,  J.
Research Group of Computational Biology, MPI for Biophysical Chemistry, Max Planck Society;

Locator
There are no locators available
Fulltext (public)

3026127.pdf
(Preprint), 774KB

Supplementary Material (public)

3026127_Suppl.pdf
(Supplementary material), 4MB

Citation

Papadopoulos, N., Parra, R. G., & Söding, J. (2019). PROSSTT: Probabilistic simulation of single-cell RNA-seq data for complex differentiation processes. Bioinformatics, (in press). doi:10.1093/bioinformatics/btz078.


Cite as: http://hdl.handle.net/21.11116/0000-0002-F36B-4
Abstract
Cellular lineage trees can be derived from single-cell RNA sequencing snapshots of differentiating cells. Currently, only datasets with simple topologies are available. To test and further develop tools for lineage tree reconstruction, we need test datasets with known complex topologies. PROSSTT can simulate scRNA-seq datasets for differentiation processes with lineage trees of any desired complexity, noise level, noise model, and size. PROSSTT also provides scripts to quantify the quality of predicted lineage trees.