Posts

In the world of genomics research, every data point carries the potential to unlock the secrets of life itself. However, as genomics datasets grow in size and complexity, so do the challenges of managing the associated disk space. This is a story of a recent journey that began with a simple tas... Continue reading...

If a human being had actually looked at his blood, anywhere along the way, instead of just running tests through the computer… parasites would have jumped right out at them. “Failure to Communicate.” House M.D. There is a case in the TV show House M.D., where a parasite infected the patient; ... Continue reading...

Login with SSH keyPutting your password every time you log into a server via SSH can be tiresome, especially if your password is long. One way to make life easier and safer is by using SSH keys. In the terminal of your local machine, type in ssh-keygen. By default, the keys will be exported to ... Continue reading...

Jupyter notebook/lab is a fantastic tool for data analysis. I used it a lot in my daily research. But one of my habits makes me suffered a lot: I keep updating the same notebook for a long time, and to make the notebook neat, I always delete some of the cells, which are “redundant”/“use... Continue reading...

Unlocking the secrets hidden in Next-Generation Sequencing (NGS) data is an exciting journey, but it’s important to ensure that the data quality is top-notch. That’s where powerful tools like FastQC come in! With FastQC, you can easily perform quality checks and ensure that your data is of the highest caliber. In this post, we delve into real-life cases where diagnostic plots from FastQC have helped unravel complex problems and bring clarity to our analysis. Join me on this thrilling adventure! Continue reading...

Some good templates for writing codes (shell, python, etc) were provided in this post. Shell script Specify shebang in the beginning of shell script, which tells the loader which interpreter should be called, this helps as different bashes have different syntaxes. In the following case, shebang l... Continue reading...

HumanCurrently, there are two widely used releases GRCh38 (hg38) and GRCh37 (hg19). GRCh38 (hg38)Sequences File name: GRCh38_no_alt_analysis_set_GCA_000001405.15.fa.gz (MD5 checksum: a08035b6a6e31780e96a34008ff21bd6) Local path: /References/Sequences/human/hg38/GRCh38_no_... Continue reading...