Do’s and Don'ts of Metadata Formatting, Part 1
By Weiming Hu and Scott G. Daniel
[Paragraph to introduce metadata.]
In our lab we process multiple research projects a month, each with their associated metadata. Because we like to process runs as quickly as possible, it’s important to have good metadata. Besides just slowing the process down, there is the horrible scenario of switched samples or completely missing metadata. From our experience, we’ve compiled a list of helpful “Do’s†that will prevent the worst from happening and ensure a successful project. Side-note: this has become such a time-drain for members of our lab that our software engineer, Charlie Bushman, has compiled some of these into our…
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Sunbeam 4.7.0 release: Updates for remote filesystems and partial workflows
By Charlie Bushman
We're excited to announce the release of Sunbeam v4.7.0! Sunbeam is a pipeline written in snakemake that simplifies and automates many of the steps in metagenomic sequencing analysis. It uses conda to manage dependencies, so it doesn't have pre-existing dependencies or admin privileges, and can be deployed on most workstations and clusters. Sunbeam was designed to be modular and extensible, allowing anyone to build off the core functionality.
This release primarily focuses on allowing Sunbeam users more flexibility with their filesystems. What started as a simple attempt to use the AWS S3 snakemake plugin quickly turned into a bigger project.…
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Welcome to the Microbiocode blog!
By Kyle Bittinger
We created this website, Microbiocode, to serve as a resource for software, databases, and educational materials developed by our team for the microbiome and microbial genomics. This blog will be a place for announcements of new software releases, updates of existing software, and short tutorials about microbiome data analysis and microbial genomics.
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