BSseq method clarification determined the following during conference call: samples were digested with MspI but not size selected prior to library prep digested genomic DNA was randomly primed during first round of PCR in library kit (see kit schematic) all read start sites should be now be random and no...
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Mon. Mar. 16, 2020 Trimming Geoduck RRBS data
This entry is about trimming for the 2016 juvenile geoduck RRBS data Hollie generated.
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Thur. Mar. 12-20, 2020 Geoduck DMR stat analysis
Contents:
DMRfind with Destranded vs. stranded data
Persistent DMRs
Combining nearby CpG counts
DMRfind false negatives
Updated heatmaps
DMRs compared by ANOVA vs GLM
Final Conclusions
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Mon. Mar. 9, 2020 Geoduck Sig. DMR heatmaps with group means
Plotting % methylation of DMRs ID’d with ANOVA
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Sat. Mar. 7, 2020 Geoduck DMR GO analysis
GO Analysis of DMRs from 11/02/2019 analysis
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