PhytoPipe: a phytosanitary pipeline for plant pathogen detection and diagnosis using RNA-seq data.

Xiaojun HuOscar P Hurtado-GonzalesBishwo N AdhikariRonald D French-MonarMartha MalapiJoseph A FosterClint D McFarland

Published in: BMC bioinformatics (2023)

PhytoPipe provides an integrative bioinformatics pipeline that can be used for the analysis of HTS RNA-seq data. PhytoPipe is easily installed on a Linux or Mac system and can be conveniently used with a Docker image, which includes all dependent packages and software related to analyses. It is publicly available on GitHub at https://github.com/healthyPlant/PhytoPipe and on Docker Hub at https://hub.docker.com/r/healthyplant/phytopipe .

Keyphrases

rna seq
single cell
network analysis
electronic health record
big data
data analysis
deep learning
bioinformatics analysis
machine learning
artificial intelligence
label free
real time pcr
cell wall