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

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

[e-mail].

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Magee R 

PROVIDER: S-EPMC5870860 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature