Match DMRs to genomic features
did bedtools intersect on DMR bed files and new annotation
gff file: Panopea-generosa-vv0.74.a4-merged-2019-10-07-4-46-46.gff3
bed files:
All ambient DMRs
Day 10 DMRs
Day 135 DMRs
Day 145 DMRs
jupyter notebook: 20191030_DMR_functional_analysis.ipynb
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Wed. Oct. 30, Notes on differential methylation stats
Methods:
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Wed. Oct. 30, Geoduck DMR filtering
Summary of DMR analysis so far:
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Tues. Oct. 29, Geoduck DMR filtering
Performing group stats on DMRs First need to determine best stats model ANOVA GLM family and link options I picked the results from one set of DMR parameters (MCmax = 10bp) and one comparison (day10 samples) to start with I ran ANOVA and GLM to see what each method identifies...
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Thur. Oct. 24, Geoduck DMR filtering
This analysis is a follow up to Wed. Oct 23 analysis
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