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  1. proslijedio/la je Tweet

    The Benjamini-Hochberg method is simple and beautiful, but has suboptimal power when tests are heterogeneous - which is almost always. IHW lets you use covariates that may be associated with each test's power or prior probability to improve overall power

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  2. proslijedio/la je Tweet
    prije 14 sati

    The dm package from provides a grammar of joined tables: you can filter, mutate, or select on particular variables within a combined set of tables (local or remote) and the changes propagate through 🤯🎉

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  3. proslijedio/la je Tweet
    4. velj

    IQ-TREE 2 has been announced by and colleagues in ! Lots of useful features, including >200 reversible and 99 nonrev DNA models, general nonrev amino acid model, and scheduling of single-locus analyses (e.g., input for ASTRAL).

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  4. proslijedio/la je Tweet
    4. velj

    A nice overview of some of the technology advances in single-cell RNA-seq in 2019 presented by .

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  5. proslijedio/la je Tweet
    4. velj

    Genome-wide MNase hypersensitivity assay unveils distinct classes of open chromatin associated with H3K27me3 and DNA methylation in Arabidopsis thaliana

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  6. 4. velj

    Might got some time this week....gonna be fun.

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  7. 4. velj

    Great tool! I was checking this last week. Is it out of beta now?

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  8. 4. velj
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  9. proslijedio/la je Tweet
    3. velj

    From reads to insight: a hitchhiker’s guide to ATAC-seq data analysis

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  10. proslijedio/la je Tweet
    3. velj

    Asked to write a chapter about RNA-seq counts modeling, I used bookdown to put all the material online. Includes some new workflow pieces like tximeta for import and swish for transcript level:

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  11. proslijedio/la je Tweet
    2. velj

    I thought it could be helpful to have a thread on ANOVA in R. As a statistical consultant, this is the most frequent FAQ I get from clients - how to run a linear model on their data, conduct hypothesis tests, extract predicted means and perform contrasts.

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  12. proslijedio/la je Tweet
    1. velj

    Based on the content of my mentions, I feel like I need to further debunk crazy / HIV conspiracy preprint. This is a thread doing so. 1/9

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  13. 2. velj
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  14. proslijedio/la je Tweet
    10. sij

    fastGWA is so fast, it take less time+memory to run an analysis than it does to fully read and digest the paper

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  15. proslijedio/la je Tweet
    31. sij

    alright all you terrified dorks let me show you how to search for matching protein sequences because there is a CERTAIN GARBAGE PAPER OUT THERE

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  16. proslijedio/la je Tweet
    30. sij

    The cis-Regulatory Atlas of the Mouse Immune System

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  17. proslijedio/la je Tweet

    The Committee emphasized that the declaration of a public health emergency shld be seen in the spirit of support & appreciation for 🇨🇳 , its people & the actions. 🇨🇳 has taken on the frontlines of this outbreak, with transparency, and, it is to be hoped, with success -Dr Houssin

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  18. 30. sij

    I just found I actually have the first edition of Doing Bayesian Data Analysis, but NEVER started! I should do it now!

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  19. proslijedio/la je Tweet
    30. sij

    First the chromatin opens, then the DNA methylation is lost. The chromatin opens because transcription factors (TFs) target those loci. TFs tell DNA methylation and nucleosomes what to do at cis-regulatory loci. Not the other way around. Your textbook needs a rewrite.

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  20. proslijedio/la je Tweet
    29. sij

    I have now written three completely different snakemake tutorials. I hope I'm getting better at this. Wildcards seem to be the biggest learning challenge so far, for people new to computation.

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