Skip to content
No description or website provided.
TeX R Python Makefile Shell JavaScript
Branch: master
Clone or download

Latest commit

Fetching latest commit…
Cannot retrieve the latest commit at this time.


Type Name Latest commit message Commit time
Failed to load latest commit information.


The field of microbiology has experienced significant growth due to transformative advances in technology and the influx of scientists driven by a curiosity to understand how microbes sustain myriad biochemical processes that maintain the Earth. With this explosion in scientific output, a significant bottleneck has been the ability to rapidly disseminate new knowledge to peers and the public. Preprints have emerged as a tool that a growing number of microbiologists are using to overcome this bottleneck. Posting preprints can help to transparently recruit a more diverse pool of reviewers prior to submitting to a journal for formal peer-review. Although use of preprints is still limited in the biological sciences, early indications are that preprints are a robust tool that can complement and enhance peer-reviewed publications. As publishing moves to embrace advances in internet technology, there are many opportunities for preprints and peer-reviewed journals to coexist in the same ecosystem.

Dependencies and locations

  • GNU bash (v.4.1.2)
  • Gnu Make (v.3.81) should be located in the user's PATH
  • R (v. 3.3.2) should be located in the user's PATH
  • The following R packages should be installed:
    • cowplot (v.0.6.9990)
    • dplyr (v.0.5.0)
    • ggplot2 (v.
    • httr (v.1.2.1)
    • RCurl (v.1.95-4.8),
    • rentrez (v.1.0.4)
    • RJSONIO (v.1.3-0)
    • rvest (v.0.3.2)
    • sportcolors (v.0.0.1)
    • tidyr (v.0.6.0)
install.packages(c("cowplot", "dplyr", "ggplot2", "httr", "RCurl", "rentrez", "RJSONIO", "rvest",
									"sportcolors", "tidyr"))

Running analysis

git clone
make write.paper
You can’t perform that action at this time.