Name: Jonathan Josephs-Spaulding
Type: User
Company: Novo Nordisk Foundation Center for Biosustainability
Bio: An environmental scientist turned into a computational biologist. Future gene expression/regulation mogul.
"Adopt the pace of nature, her secret is patience"
Location: Copenhage, Denmark
Blog: https://www.linkedin.com/in/jonathan-josephs-spaulding-96688aab/
Jonathan Josephs-Spaulding's Projects
agent based modelling
Informed prediction and analysis of bacteria metabolic pathways and genome-scale networks
LactoPRECISE: A comprehensive framework exploring Lactobacillus reuteri's genetic diversity, regulatory networks, and functional annotations for personalized medicine and microbial therapeutics.
A variety of RNA-Seq pipelines are presented: Tuxedo for bacteria, Tuxedo for Humans, and HISAT2 for Humans. Additionally, you can find scripts for normalization of RNA-Seq Counts and scripts for visualization of DEGs
SAMSA pipeline, version 2.0. This version supports use on a local cluster using DIAMOND for annotations.
Leveraging patient-specific metatranscriptome to reconstruct and simulate microbiome community model