nextpresso implements a pipeline to perform a complete analysis of RNA-seq data, across four different execution levels: (1) read quality and contamination checks (2) read preprocessing through read trimming and/or down-sampling (3) aligning of reads to the genomic or transcriptomic references (4) processing of the obtained alignments to perform the different analysis. nextpresso has been designed for execution on HPC, scheduled by an SGE system or by a PBS system. Although sequential execution in a single workstation is also allowed.
 
O. Graņa; M. Rubio-Camarillo; F. Fdez-Riverola; D.G. Pisano; D. Glez-Peņa (2017) nextpresso: next generation sequencing expression analysis pipeline. Current Bioinformatics. Volume 12. ISSN: (Online) 2212-392X - (Print) 1574-8936. DOI: 10.2174/1574893612666170810153850                                                                                         
[paper]


nextpresso tutorial


Description of updates through the different nextpresso versions


Download nextpresso 1.4
Download nextpresso 1.5
Download nextpresso 1.6
Download nextpresso 1.7
Download nextpresso 1.8 from GitHub
Download nextpresso 1.9 from GitHub
Download nextpresso 1.9.1 from GitHub
Download nextpresso 1.9.2 from GitHub
Download nextpresso 1.9.2.1 from GitHub
Download nextpresso 1.9.2.2 from GitHub
Download nextpresso 1.9.2.3 from GitHub
 
nextpresso is also available as a docker image from Docker Hub
docker pull osvaldogc/nextpresso:1.9.1
docker pull osvaldogc/nextpresso:1.9.2
docker pull osvaldogc/nextpresso:1.9.2.1
docker pull osvaldogc/nextpresso:1.9.2.2
docker pull osvaldogc/nextpresso:1.9.2.3
 
 
Osvaldo Graña
Miriam Rubio-Camarillo
F. Fdez-Riverola
David G. Pisano
D. Glez-Peña