Biostar Rgadem

Showing : rgadem • reset

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600

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software error rgadem caught segfault GADEM

4.7 years ago vgms3311 • 0

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1.3k

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rgadem

updated 5.2 years ago by Martin Morgan 25k • written 5.2 years ago by christopher.chaney • 0

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719

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rGADEM

6.2 years ago emiliomastriani • 0

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978

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rGADEM

updated 6.4 years ago by Charles Joly Beauparlant ▴ 170 • written 6.4 years ago by vinod.acear ▴ 50

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1.1k

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rgadem motiv chipseq jaspar

updated 7.0 years ago by emercier • 0 • written 7.0 years ago by w.jarassier • 0

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1.1k

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rGADEM MotIV MotifDb rGADEM MotIV MotifDb

8.2 years ago Bahar ▴ 10

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1.0k

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rGADEM rGADEM

9.2 years ago Lakshmanan Iyer ▴ 50

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871

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rGADEM MotifDb rGADEM MotifDb

updated 9.2 years ago by José Luis Lavín ▴ 80 • written 9.2 years ago by Paul Shannon ▴ 750

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863

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rGADEM rGADEM

9.3 years ago Alexandra Zerck ▴ 10

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610

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rGADEM rGADEM

10.3 years ago Arnaud Droit ▴ 20

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814

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rGADEM rGADEM

updated 10.4 years ago by Dan Tenenbaum ★ 8.2k • written 10.4 years ago by Dave S ▴ 10

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692

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Transcription rGADEM Transcription rGADEM

10.8 years ago Charles Joly ▴ 10

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872

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Alignment rGADEM MotIV Alignment rGADEM MotIV

10.8 years ago Mercier Eloi ▴ 60

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740

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Alignment rGADEM MotIV Alignment rGADEM MotIV

10.8 years ago Chris Whelan ▴ 60

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1.0k

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rGADEM MotIV rGADEM MotIV

updated 10.8 years ago by Charles Joly Beauparlant ▴ 170 • written 10.8 years ago by mattia pelizzola ▴ 200

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Comment: ashr vs apeglm for interaction data by Ali Barry ▴ 30

Thanks, I'll trying playing a bit there. I have done some minor filtering already (requiring at least 5 counts in 10% of my samples, across…

Comment: ashr vs apeglm for interaction data by Michael Love 37k

I see why apeglm is conservative— the dispersion is very high within group. An idea would be to use ashr but do some additional filtering …

Comment: How to figure out the FC value from Limma by ATpoint ★ 1.2k

That’s an Excel problem, not a GEO/R problem or related to limma and Bioconductor.

Comment: ashr vs apeglm for interaction data by Ali Barry ▴ 30

Hi Michael, Plots attached. Many of the large fold changes with `ashr` are driven by one sample per group, but a few are maybe a bit more …

Comment: regression analysis for epic array methylation data using limma by nabiyogesh ▴ 10

Thanks! I have tried this; I am not sure after that how to find logeGFR associated probe? and also, how to filter significant probe? …

Votes

Answer: How to properly use DESeq2 for an experiment

Comment: ashr vs apeglm for interaction data

Comment: How to figure out the FC value from Limma

Answer: Warnings when using "ashr" in lfcshrinkage for DESeq2

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