pyNVR

The software tool 'pyNVR' is a Python package for the unsupervised selection of high-quality features from single-cell RNA sequencing data. The tool implements the neighborhood variance ratio (NVR) approach and shows improved performance over other unsupervised algorithms such as dpFeature. The study also suggests that dataset properties can affect the performance of these algorithms.

Topic

RNA-Seq;Gene expression

Detail

  • Operation: RNA-seq analysis

  • Software interface: -

  • Language: Python

  • License: GNU General Public License v2

  • Cost: Free

  • Version name: -

  • Credit: NIDDK, NCI, NLM, NIGMS, NICHD.

  • Input: -

  • Output: -

  • Contact: ken.s.lau@vanderbilt.edu

  • Collection: -

  • Maturity: -

Publications

  • pyNVR: investigating factors affecting feature selection from scRNA-seq data for lineage reconstruction.
  • Chen B, et al. pyNVR: investigating factors affecting feature selection from scRNA-seq data for lineage reconstruction. pyNVR: investigating factors affecting feature selection from scRNA-seq data for lineage reconstruction. 2019; 35:2335-2337. doi: 10.1093/bioinformatics/bty950
  • https://doi.org/10.1093/bioinformatics/bty950
  • PMID: 30445607
  • PMC: 30445607

Download and documentation

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