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Investigation Structure

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Robert J. Gifford edited this page Jun 24, 2024 · 7 revisions

Structure of a DIGS-based Investigation

Comparative studies using database-integrated genome screening (DIGS) entail separate 'exploration' and 'analysis' phases, with each of these phases being split into two component parts as follows:

  • Exploration: (1) Setting up and (2) running a similarity search-based screen.
  • Analysis: (3) Inspecting screening output via a relational database, and (4) performing comparative analysis of exported sequence data.

As shown above, this process is usually iterative - at least to some degree - since analysis of screening results often reveals new information that can be used to design more informative or comprehensive screens.

The Database Integrated Genome Screening (DIGS) Tool Wiki

Maintained by: R.J. Gifford.

DIGS Tool

  1. Home
  2. Background
  3. Requirements
  4. Installation
  5. Getting Started

Overview

  1. DIGS Concept
  2. Investigation Structure
  3. Exploration Phase
  4. Analysis Phase

Input Components

  1. Target Database (tDB)
  2. Reference Sequence Library (RSL)
  3. Query Sequences (Probes)
  4. Control File

Process

  1. Running a Screen
  2. Project Database
  3. Database Querying
  4. Extending the Project DB Schema
  5. Reclassifying Results
  6. Merging Contiguous Hits

Reference

  1. Example SQL
  2. Archive & Restore Project DBs

Further Information

  1. FAQ
  2. NCBI taxonomy DB
  3. Installation-Guide-for-OS-X

Source Code

  1. Development Approach
  2. Code Summary
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