We herein described five KNIME workflows that can be used to perform a comprehensive chemoinformatic characterization of chemical databases. The workflows include: a) descriptor calculation, b) scaffold identification, c) PAINS substructure identification, d) fingerprint calculation, and chemical space visualization. One of the main characteristics of the workflows is the use of low-cost or free tools that require minimal coding expertise, which is an advantage for those students and professionals unfamiliar with chemoinformatics or those who wish for an introduction to this magnificent field. The workflows serve as valuable additions to the existing KNIME workflows published in the fields of medicinal chemistry and cheminformatics, as they are designed to facilitate the use of this tool in the database analysis process.