r-nastiseq

downloads

Pairs of RNA molecules transcribed from partially or entirely complementary loci are called cis-natural antisense transcripts (cis-NATs), and they play key roles in the regulation of gene expression in many organisms. A promising experimental tool for profiling sense and antisense transcription is strand-specific RNA sequencing (ssRNA-seq). To identify cis-NATs using ssRNA-seq, we developed a new computational method based on model comparison that incorporates the inherent variable efficiency of generating perfectly strand-specific libraries. Applying the method to new ssRNA-seq data from whole root and cell-type specific Arabidopsis libraries confirmed most of the known cis-NAT pairs and identified hundreds of additional cis-NAT pairs.

Home https://ohlerlab.mdc-berlin.de/software/NASTIseq_104/
Versions 1.0
License GPL-2.0
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/r-nastiseq

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install r-nastiseq

and update with:

conda update r-nastiseq

docker

A Docker container is available at https://quay.io/repository/biocontainers/r-nastiseq.