GenBank/RefSeq Update Build

These pages describe of building the GenBank and RefSeq tracks for a new genome database.

Genome setup - How to setup a new genome or new assembly
Configuration file - Configuration file for GenBank alignment and update process.

GenBank/RefSeq Update Implementation

This describes the process of automatic, incrementally updating the genome databases from GenBank and RefSeq.

Overview

Goals
Annoying issues
Directory structure
Implementation
Error handling
ignore index

Process Overview

The steps are divided into two categories; genome-independent and genome- dependent. The genome-independent task involve downloading and processing of data. Genome-dependent task are specific to a genome and assembly and involve alignment sequence and database updates.

Process Steps:

download
data processing
alignment
database update

Deployment

Deployment
Tables involved

Contact Mark Diekhans