# [Reference-guided metagenomics reveals genome-level evidence of potential microbial transmission from the ISS environment to an astronaut's nasal microbiome](https://doi.org/10.1016/j.isci.2021.102114) <a href="https://doi.org/10.1016/j.isci.2021.102114"><img src="https://i.imgur.com/sauWi8p.png"></a> [Lee et al. 2021](https://doi.org/10.1016/j.isci.2021.102114) --- > This OSF holds the annotated processing code to facilitate following and reproducing the work presented in [this paper](https://doi.org/10.1016/j.isci.2021.102114). Each page notes at the top which data files are needed to pick up from that location and which programs and versions were utilized. While the ISS-derived isolate assemblies are immediately available (both through NCBI BioProject [PRJNA486830](https://www.ncbi.nlm.nih.gov/bioproject/PRJNA486830) and on this osf [here](https://osf.io/mr582/files/)), unfortunately the astronaut metagenomic data is not due to IRB constrains, and would need to be requested from [LSDA here](https://lsda.jsc.nasa.gov/Experiment/exper/1836). ### Table of Contents 1. [Summarizing and dereplicating the ISS-derived isolate assemblies](https://osf.io/mr582/wiki/1.%20Summarizing%20and%20dereplicating%20the%20ISS-derived%20isolate%20assemblies/) 2. [Mapping the astronaut metagenomic reads to our dereplicated assemblies](https://osf.io/mr582/wiki/2.%20Mapping%20to%20the%20dereplicated%20assemblies/) 3. [Exploring broad read-recruitment results in R](https://osf.io/mr582/wiki/3.%20Exploring%20read-recruitment%20results%20in%20R/) 4. [Visualizing recruitment with anvi'o](https://osf.io/mr582/wiki/4.%20Visualizing%20recruitment%20with%20anvi%27o/) ---------- #### Note If you are new to bioinformatics and/or the wonderful world of [conda](https://docs.conda.io/en/latest/) or [snakemake](https://snakemake.readthedocs.io/en/stable/), there is excellent documentation provided at those links. I also have a [Unix Crash Course](https://astrobiomike.github.io/unix/unix-intro) and an [introduction to conda page here](https://astrobiomike.github.io/unix/conda-intro) up at [Happy Belly Bioinformatics](https://astrobiomike.github.io/) 🙂