From c73e44b7628209576215259df9b6ec08c515a3d8 Mon Sep 17 00:00:00 2001 From: Chris Flerin Date: Wed, 24 Jun 2020 11:26:16 +0200 Subject: [PATCH] Updated readme --- README.rst | 2 ++ 1 file changed, 2 insertions(+) diff --git a/README.rst b/README.rst index 1e9d6ea..63741af 100644 --- a/README.rst +++ b/README.rst @@ -8,6 +8,7 @@ Clustering) which enables biologists to infer transcription factors, gene regula single-cell RNA-seq data. The pioneering work was done in R and results were published in Nature Methods [1]_. +A new and comprehensive description of this Python implementation of the SCENIC pipeline is available in Nature Protocols [5]_ (`see here `_). pySCENIC can be run on a single desktop machine but easily scales to multi-core clusters to analyze thousands of cells in no time. The latter is achieved via the dask_ framework for distributed computing [2]_. @@ -83,6 +84,7 @@ References .. [2] Rocklin, M. Dask: parallel computation with blocked algorithms and task scheduling. conference.scipy.org .. [3] Huynh-Thu, V. A. et al. Inferring regulatory networks from expression data using tree-based methods. PLoS ONE 5, (2010). .. [4] Zeisel, A. et al. Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq. Science 347, 1138–1142 (2015). +.. [5] Van de Sande B., Flerin C., et al. A scalable SCENIC workflow for single-cell gene regulatory network analysis. Nat Protoc. June 2020:1-30. doi:10.1038/s41596-020-0336-2 .. |buildstatus| image:: https://travis-ci.org/aertslab/pySCENIC.svg?branch=master .. _buildstatus: https://travis-ci.org/aertslab/pySCENIC