base/base.html

bioscripts/index.html

This page indexes a collection of tools available as web applications for bioinformaticians and geneticists. The tools automate various tasks that often are performed manually. The source code for this page is available on GitHub.

HGNC version

HGNC version

This tool shows the differences of gene symbols over the months on a heatmap. HGNC archive tables have been flattened out to the files and have been committed to a git repo in a chronological order. The data repo can be found at github.

Cross-symbol checker

Cross Symbol Checker Logo

This tool maps aliases, and previous or withdrawn symbols to current approved HGNC symbols as well as check for any entries that are not gene symbols and fix capitalization. Ensembl and RefSeq annotation files sometimes use previous or alias symbols. This tool also cross checks against Ensembl and NCBI annotation files for different genome versions and shows which gene symbols used. This way an accurate gene set can be utilized to avoid false negatives in the variant discovery process. The source code is available on GitHub.

PRiSm

Polygenic Risk Score Simulation

This tool simulates genotypes for control and case groups and performs logistic regression on score. The tools is served at shinyapps. You can read more about how it works and the components within at this post The source code is available on GitHub.