Format

Send to

Choose Destination
Bioinformatics. 2017 Jul 1;33(13):2034-2036. doi: 10.1093/bioinformatics/btx073.

Threshold-seq: a tool for determining the threshold in short RNA-seq datasets.

Author information

1
Computational Medicine Center, Thomas Jefferson University, Philadelphia, PA 19107, USA.

Abstract

Summary:

We present 'Threshold-seq,' a new approach for determining thresholds in deep-sequencing datasets of short RNA transcripts. Threshold-seq addresses the critical question of how many reads need to support a short RNA molecule in a given dataset before it can be considered different from 'background.' The proposed scheme is easy to implement and incorporate into existing pipelines.

Availability and Implementation:

Source code of Threshold-seq is freely available as an R package at: http://cm.jefferson.edu/threshold-seq/.

Contact:

isidore.rigoutsos@jefferson.edu.

Supplementary information:

Supplementary data are available at Bioinformatics online.

PMID:
28203700
PMCID:
PMC5870860
DOI:
10.1093/bioinformatics/btx073
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center