Leveraging Rmarkdown and Nextflow for automatic report generation
The R language ecosystem offers an unparalleled experience for interactive data analysis, with its stream-of-consciousness fluidity that lets you focus on d...
Recent Posts
AMI for Nextflow on AWS Batch using Packer
If you leverage the cloud for your bioinformatics compute Nextflow is a great tool that allows you to develop and test your workflow locally, and then seamle...
Visualizing BAM files hosted on s3
While the end product of many bioinformatics analyses are tables and graphs being able to visually inspect the alignment of sequencing data is valuable durin...
Configuring EC2 instance storage for genomics workflows
When deploying a genomics pipeline on AWS one of the biggest corners to stub your toes on is that Amazon meters EBS disk I/O. This can lead to strange situat...
Packaging Conda Environments For Nextflow And Aws Batch
If you are running Nextflow pipelines on AWS Batch you will run into a conundrum: AWS Batch requires your jobs to be containerized using Docker, but Nextflow...
Nextflow Scatter Gather
Sometimes when building a workflow you’ll run into a situation where one of the steps in your workflow takes much longer than it should (or at least longer t...