NCGAS is teaching a course in genomics, officially FA21: SPECIAL TOPICS IN ZOOLOGY: 46585 … rolls right off the tongue, but might be better called GEMS: WORKFLOWS IN GENOMICS. GEMS is Genomics and eco-evolution of multi-scale symbioses. The concept is that we start with a data set from the literature that includes Illumina and Nanopore…… Read more »
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Circle-sequencing RNA
We hosted Jean-Francois Gout of Mississippi State University this month. Jean-Francois did his post-doc work with the Lynch Lab at Indiana University and then Arizona State University (when the Lynch Lab relocated). He spoke about RNA transcription error and how to detect and study them using novel circle-sequencing of the RNA to produce multiple copies…… Read more »
Tunneling a Jupyter Notebook from an HPC
Jupyter Notebook Tunneling is a convenient trick to have in your back pocket, especially when the resources on your personal computer are limiting your progress. Tunneling allows you to run your notebook from a remote host such that your processes utilize the resources available on your host, rather than your personal computer. In this brief…… Read more »
A Quick Intro to Singularity Containers
What is Singularity? A Singularity container is used to encapsulate all required software and dependencies for a workflow. This is extremely useful when trying to execute a particular workflow on different systems. Containers make compiling software on different compute platforms easy and effortless. The best part is you don’t need admin privileges with Singularity if…… Read more »
Finding protein homologs at NCBI and making a phylogenetic tree
This blog is brought to you by NCGAS undergraduate intern Christina Campbell and is inspired by the curiosity of former NCGAS Co-PI Craig Stewart (who is now enjoying well-earned retirement). This is part of a multi-part series on exploring questions about epigenetics in beetles. Follow along as we determine which species have methylation enzymes, how these patterns are organized on the species tree of beetles, and how you can explore possible patterns of methylation – entirely with bioinformatics!
Celebrating what we can about 2020
2020 was a rough year for many reasons, but there are still things to be excited about – here are the staff picks of interesting or exciting news in 2020!
Preparing for the approaching retirement of DC2
The Data Capacitor II or DC2 (for more details, link here) is a high-performance file system that will be retiring soon. Toward that end, on October 11th, 2020 the file system will become read-only and on December 11th, 2020 the file system will be shut down for the last time. This will affect all users…… Read more »
Installing Jupyter notebook on Jetstream
Jupyter notebook is an open-source project that supports interactive data science and scientific computing across programming languages. Notebooks are great to have all your code, text, images, and equations in one single document. This is easy to share, run on other datasets, and customize scripts from a template. This tutorial is on how to setup…… Read more »
New NCGAS website
NCGAS new website changes and new links
Bioinformatic tools and support for virology research
Available resources and tools through NCGAS in support for COVID19 research