- started aligning the stand-in genome to grch38 so each read gets an address
- created a codex skill to search X/Twitter through the xAI API
- compared CPU Sarek vs NVIDIA Parabricks GPUs, but kept the first run simple
- migrated the project to a new codex environment for cheaper tokens after spending too much
- ran small google cloud and seqera tests to make sure the setup is working correctly
- uploaded a 78 gb gzipped sample wgs genome file to google cloud to prepare the first sarek run
- set up seqera and google cloud accounts so analysis can run off the local computer
- built this site so the work log can be updated each day
- ran nf-core/sarek on the cloud for the first time
- set up an external ssd as the working home for genome data
- extracted a 30x short-read whole genome from the personal genomes project onto that drive as a temporary sample
- planned the analysis architecture around nf-core/sarek, the open source pipeline we will use first