How to find and download the EnsDb, the Ensembl genomic annotation in SQLite database made by R package ensembldb, and use it in Python application.

TL;DR Run a RNA-seq pipeline using Snakemake locally and later port it to Google Cloud. Snakemake can parallelize jobs of a pipeline and even across machines.

Snakemake has been my favorite workflow management system for a while. I came across it while writing my master thesis and from the …

For my daily terminal life, I use fish shell. Fish shell can be largely described by the headline on its official website:

Finally, a command line shell for the 90s
fish is a smart and user-friendly command line shell for macOS, Linux, and the rest of the family.

Among all …

I started using GPG key as one of my small experiments in March, 2015. Throughout the setup, I made some mistakes, which I revoked later, and explored several usage scenarios. Although like what was said in the post I’m giving up on PGP, I don’t really use the …

## 關於我的學校與城市

nginx -- unix socket -- uWSGI -- Django


### conda

conda 是一個 Python 套件的管理系統，他的好處是，遇到要使用外部 library 時，會這些套件相依的 library 都一併安裝管理 …

Using fundamental R/Biocondcutor packages (e.g. AnnotationHub, ensembldb and biomaRt) to query Ensembl genomic references or annotations.

nginx -- unix socket -- uWSGI -- Django