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Bioinformatics

AWS Elastic Compute Clusters for Genomics

AWS Elastic Compute Clusters for Genomics

Amazon Web Services (AWS) gives you the ability to build out all kinds of cool infrastructure. Databases, web servers,Kubernetes backed applications, Spark clusters, machine learning models, and even High-Performance Computing Clusters with AWS ParallelCluster. Not just clusters, but Elastic Clusters! One of the cooler aspects of using a cloud

Deploy HPC Modules From Bioconda Packages

Deploy HPC Modules From Bioconda Packages

I have been working in Bioinformatics for nearly 10 years, mostly on the computational side of things. I have spent a lot of that time building and installing software. Some of those wounds will never heal! Luckily, along cameAnaconda, the scientific distribution of Python, along with the awesome BioConda who

Dask Tips and Tricks – HighLevelGraphs

Dask Tips and Tricks – HighLevelGraphs

For those of you who have written MPI, this is kind of like that, except you don't have to write MPI!If you would like to know more about basic Dask syntax, check out my blog post on Parallelizing For Loops with Dask. Dask Syntax Normally when using

Dask Tips and Tricks – Parallelize a For Loop

Dask Tips and Tricks – Parallelize a For Loop

If you're in the scientific computing space there's a good chance you've used Python. A relatively recent addition to the family of awesome libraries in Python for Scientific Computing isDask. It is a super cool library that allows you to parallelize your code with

Deploy Bioinformatics Modules on HPC

Deploy Bioinformatics Modules on HPC

Deploying scientific software in an HPC environment can be challenging. Deploying bioinformatics software anyhow anywhere, or say a High Performance Computing Cluster (HPC), can be especially challenging! Life, at least in this regard, has become so much better in the last few years. Anaconda, the scientific python distro along with

3 Easy Ways to Deploy your Docker Web App on AWS

3 Easy Ways to Deploy your Docker Web App on AWS

AWS is shiny AWS is so, so shiny and awesome, but when I first got started I felt overwhelmed by the sheer amount of stuff. There is so much flexibility, and cli tools, and ways to do anything. Initially, all I wanted to be able to do the things I&

Configure Nginx to Serve a Flask App

Configure Nginx to Serve a Flask App

Deploying your web application with NGINX I was so stoked the first time I'd managed to build a web application. It was solving an actual problem real people were facing. It was love at first site between me and infinite scroll data tables. Then I had to deploy