Subscribe Posts by category By tags

Recent posts

  • 2018-02-20 | medchem

    edX Medicinal Chemistry - Chapter Two on the drug discovery process

    Chapter two gives an overview on the whole drug discovery process, from basic approaches of drug discovery to marketing.

  • 2018-02-03 | machine-learning

    A crash course to start state-of-the-art NLP in 2018

    Recently I stumbled via HackerNews upon a good article introducing how to perform state-of-the-art natural language processing (NLP) analysis, featuring real-world examples.

  • 2018-02-01 | career

    Zürich Life Science Day 2018: presentation and impressions

    Zürich Life Science Day is a one-day event organised by the Life Science Zurich Young Scientist Network, mostly students from ETH and Univeristy of Zürich, that aims at introducing career opportunities to students and young professionals in life science. Beyond booths and stands by academic institutes and companies, career opportunities in both academics and industry are presented by speakers with years of first-hand experience in respective functions and positions.

  • 2018-01-20 | programming

    Develop R packages with Rcpp and RStudio

    Recently, I updated the ribiosMath package. The aim was to increase the efficiency of several commonly used computational procedures (Kappa’s statistic, cosine similarity, etc.) by implementing them in C++.

  • 2018-01-16 | programming

    Notes on using sqlite3

    Below we assume that the SQLite3 database is stored in a file ‘mydb’

    • To list all tables in a database 
        sqlite3 mydb .tables

      In an interactive session, .tables can be also used to list all tables.

    • To print the schema of a database into a text file 
        sqlite3 mydb .schema > mydb_schema.sql
    • To list the first 10 rows of a table (mytable) in an interactive session 
        SELECT * FROM mytable WHERE ROWID<=10;
    • To use foreign keys in sqlite3, say column ParentID in table ChildTable should reference the column ID in table ParentTable 
        CREATE TABLE ParentTable (
    ID INTEGER PRIMARY KEY,
    NAME TEXT
  );
  CREATE TABLE ChildTable (
    ID INTEGER PRIMARY KEY,
    ParentID INTEGER,
    NAME TEXT,
    FOREIGN KEY(ParentID) REFERENCES ParentTable(ID)
  );

      Notice that in the last parameter of create table, ParentID is used as a parameter of the function FOREIGN KEY, and the parent table and foreign key column are defined by the format ParentTable(ID). The two parentheses are interpreted differently.