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Permanent Position as Researcher/Computational Biologist at the National Genomics Infrastructure (Sweden)
Permanent Position as Researcher/Computational Biologist at the National Genomics Infrastructure (Sweden)
Downloading NCBI Blast nt database
Comment: log2 fold change in RNA-seq analysis
Comment: log2 fold change in RNA-seq analysis
Answer: Ideal PC configurations and operating system for bioinformatics laboratory
correct way of analyzing cell proportions in singlecell data
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MGI has a [Gene Expression Database](https://www.informatics.jax.org/expression.shtml) that'll largely get you what you want.
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Your files end in `CpG_report` so they are the "genome-wide cytosine report output". If you look at the [Bismark documentation][1] you will…
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Do not use all caps - it's bad etiquette. I've fixed things for you this time.
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I've recently also analyzed EPICv2 and have noticed that the log2 median intensities (and particularly the "uMed" channel), for an otherwis…
Comment: log2 fold change in RNA-seq analysis
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May Ling
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Thank you so much for the confirmation Sir! Appreciate that. I think the paragraph was trying to say that: a fold change greater than **…
Comment: Difference in Bismark output methylation call files and coverage files
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skdv2522
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Chr1 192 + 0 0 CG CGA Chr1 193 - 0 0 CG CGA Chr1 197 + 0 0 CG CGT Chr1 198 - 0 0 CG CGG Chr1 218 + 0 0 CG CGA Chr1 …
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cross-posted: https://stackoverflow.com/questions/78522566/ > Do not post on multiple forums - that is just bad etiquette. What's worse, y…
Comment: log2 fold change in RNA-seq analysis
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dsull
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Your understanding is correct. That attached highlighted sentence is wrong.
Comment: minfi::getQC - is default badsamplecutoff of 10.5 always appropriate? ~half of s
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June
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Hello, I just started working on analyzing methylation EPIC array data using minfi. Data is generated on EPICv2 array and I'm using up…
Comment: Classic threshold for log2 fold change in RNA-seq experiment
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Please do not add answers unless you're actually answering the top level question. Open your own question if the forum has not addressed it…
Comment: log2 fold change in RNA-seq analysis
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May Ling
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Thank you for your prompt reply Sir! I think I finally understand the concept. Please correct me if I'm wrong: Let's say we are comparing …
Comment: log2 fold change in RNA-seq analysis
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Hatchet
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He means that the result of DEA will contain DEGs of A vs B. He gets LFC numbers in one column and positive LFC numbers will mean positive …
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Comment: log2 fold change in RNA-seq analysis
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i.sudbery
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There is no such thing as a fold change of -2. Fold change is expression_in_condition_A/expresssion_in_condition_B as expression is a…
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