My Linux terminal
Everything have a price tag and it is just a matter of opportunity cost.
Last updated
Everything have a price tag and it is just a matter of opportunity cost.
Last updated
This is my secondary computer. It was more than 5 years ago when I first built it but it takes less than 10 minutes to finish an Hisat2 alignment with around 20M paired reads. The fastqc takes quite a bit of time (minutes) for a large experiment panel but I think that is reasonable and I can live with it.
OS: Ubuntu 20.04.2.0 LTS CPU: i7-4790k RAM: 8Gbx2 DDR3 Kingston Primary Storage: SSD (I don't really see a difference in processing the data in SSD or HDD. The bottleneck might be in the RAM and CPU at this file size.) Permanent Storage: 4TB mechanical disk Mainboard: ASUS z97
If you are familiar with building computer then you might as well build one for your own good. Other options would be AWS cloud computing or other cloud computing.
The advantage of renting a cloud computer is that you do not need to set it up and/or maintain on your own, and they can be as super as one wants. Setting up your own environment could be overwhelming if you hate command lines and do not like the ideas of Linux. Reading on and you could find that I have spent significant amount of effort trying to fix the environment setting issues. Nevertheless I recommend one to have their own set up if
It is affordable, which is super personal and down to definition. Like I already have one set of parts in perfect working condition and it is powerful enough to suit my needs for what I want to do. It is a no-brainer to go for my own set up.
You enjoyed doing so. This is of utmost importance.
And there is a paper for it - Basically translate to we can get away with a mediocre hardware set up if we avoid STAR package for alignment.