User: mathias.heydt

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Posts by mathias.heydt

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Comment: C: Transfer of MHC-I, MHC-II epitope prediction to non-model organism (fish)
... Hi Michael There exist some tools that try to predict binding affinity if you feed protein sequences aswell, but unless the binding affinity for fish (your salmon⁾ have been taken up in an existing predicting tool you're out of luck. You could start making your own tool if there are even binding af ...
written 11 minutes ago by mathias.heydt20
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Comment: C: Transfer of MHC-I, MHC-II epitope prediction to non-model organism (fish)
... There are no prediction methods in that IEDB tool that allow for predictions for fish, so why do you want to use it again? In any case, you did not link the 'presented alleles' from the paper (and the reference in the paper doesn't work, I think). Do you mean these alleles? : https://www.ebi.ac.uk ...
written 4 days ago by mathias.heydt20
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Filtering & validation strategies for methylation analysis without normal controls
... Hi all I am currently analyzing 450K methylation data, trying to find differentially methylated probes without normal controls - until I do have normal data. InfiniumPurify (Zheng et al. 2017) can calculate differentially methylated cpgs when no normal controls are available. The problem is that ...
epigenomics infiniumpurify methylation written 11 days ago by mathias.heydt20
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Best way to use champ.impute or impute.knn - neighbor approach?
... Hi all, I'm both new to the forums, and new to methylation analysis I'm currently exploring the functions of ChAMP, which seems very useful. I want to impute some missing values in my dataset - which is a beta value matrix and an additional sample sheet, and I'd like to know how champ.impute() work ...
R impute champ written 4 months ago by mathias.heydt20

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