Segtools

Segtools analyzes genomic segmentations by summarizing labeled genomic segments to facilitate interpretation of functional and biochemical annotations across genomes.

Key Features:

• Automation: Automates exploration of genomic segmentations to process large genome-wide datasets.
• Interoperability of tools: Provides a series of interacting tools with distinct summarization modes that can be integrated into analysis pipelines.
• Comprehensive summarization: Summarizes segmentations in multiple contexts and supports data such as ChIP-seq peaks labeled with DNA-binding proteins and annotations of cis-regulatory modules and genes.

Scientific Applications:

• Functional genomics interpretation: Interpreting data from functional genomics experiments by summarizing genome segmentations.
• Histone modification datasets: Analyzing human histone modification datasets to study epigenetic regulation.
• Chromatin structure analysis: Studying local chromatin structure in Plasmodium falciparum.

Methodology:

Processes labeled genomic segments and applies a suite of summarization tools to identify patterns and relationships across segmentations.