Last updated: 2022-03-01

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Knit directory: chipseq-cross-species/

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Rmd 7c723e0 lecook 2022-02-09 Start workflowr project.

Laura Cook

Workflow and analysis of comparative craniofacial ChIP-seq work in the fat-tailed dunnart and mouse

This project involves a number of analysis for the generation of ChIP-seq data for the fat-tailed dunnart for comparison with the exisiting mouse data in ENCODE.

Data preparation and peak calling

Outlines read mapping, filtering, QC and peak calling.

Outlines filtering aligned reads from ENCODE, QC and peak calling.

Data analyses

  • Whole genome alignment between mouse and dunnart

  • Dunnart peak characterisation

  • Cross-species peak comparisons

    • Peak level

    • Gene level

    • Incorporating temporal mouse gene expression data