in Bioinfo

Build EnsDb from a local Ensembl MySQL database

en r bioconductor sqlite ensembldb

In some occasions, I need to access the older version of Ensembl human transcripts. For example, the mutation calls generated by the NCI’s Genomic Data Common pipeline are annotated by Ensembl v84. To programmatically query the Ensembl annotations, I use the EnsDb SQLite database created by ensembldb, which is …

in Bioinfo

Using EnsDb's annotation database in Python

en python r bioconductor ensembldb

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.