Bioconductor Frmatools

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frmaTools affy

updated 8 weeks ago by James W. MacDonald 65k • written 8 weeks ago by michelafrancesconi8 • 0

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frma frmatools

updated 6.0 years ago by Matthew McCall ▴ 830 • written 6.0 years ago by skol • 0

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affymetrix microarrays frmatools altcdfenvs

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frma frmatools affy

updated 7.6 years ago by Matthew McCall ▴ 830 • written 7.6 years ago by yesitsjess • 0

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frma frmatools affymetrix microarrays

8.1 years ago jperezrogers • 0

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frma frmatools

updated 9.2 years ago by Matthew McCall ▴ 830 • written 9.2 years ago by Ryan C. Thompson ★ 7.9k

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frma frmatools

updated 9.2 years ago by Matthew McCall ▴ 830 • written 9.2 years ago by Ryan C. Thompson ★ 7.9k

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annotation frma frmatools

updated 9.4 years ago by Matthew McCall ▴ 830 • written 9.4 years ago by Tim Triche ★ 4.2k

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frmaTools frmaTools

10.5 years ago Loraine, Ann ▴ 50

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cdf frmaTools cdf frmaTools

updated 10.8 years ago by Matthew McCall ▴ 830 • written 10.8 years ago by Ty Thomson ▴ 100

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Microarray probe frma frmaTools Microarray probe frma frmaTools

updated 10.9 years ago by Matthew McCall ▴ 830 • written 10.9 years ago by Tae-Hoon Chung ▴ 70

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probe frmaTools probe frmaTools

updated 10.9 years ago by Matthew McCall ▴ 830 • written 10.9 years ago by Tae-Hoon Chung ▴ 70

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cdf frma frmaTools cdf frma frmaTools

updated 11.1 years ago by Stephen Piccolo ▴ 590 • written 11.1 years ago by Guest User ★ 13k

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Microarray Annotation Normalization affy PROcess safe frma frmaTools Microarray affy

updated 11.4 years ago by Benilton Carvalho ★ 4.3k • written 11.4 years ago by wrighth ▴ 260

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Normalization probe oligo frma frmaTools Normalization probe oligo frma frmaTools

11.7 years ago Schott, Johanna ▴ 20

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Normalization probe frma frmaTools Normalization probe frma frmaTools

updated 11.7 years ago by James W. MacDonald 65k • written 11.7 years ago by Guest User ★ 13k

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Comment: Multi factor design edgeR/Deseq2 by Elizabeth • 0

Sorry I realise this thread is ancient, but I'm wondering why it's ok to remove the last column from the design matrix? Also, why this desi…

Comment: DESeq2 setting significant p-value by Michael Love 41k

It does not resort. Also the dataset and results will have the same row names from object creation throughout the analysis.

Comment: Input Question for deseq.r by ATpoint ★ 4.0k

It is unclear what "deseq.r" is. It is not part of DESeq2, and almost certainly no part of RSeqAn. Please add details, and keep in mind tha…

Answer: DESEQ2 output gives multiple groups when only 2 groups are present by ATpoint ★ 4.0k

In the first PCA plot there is almost certainly some hidden character like whitespaces in the column from colData that encodes this group. …

Answer: A ComBat-seq issue: the covariates are confounded by ATpoint ★ 4.0k

```r > table(batch, group) group batch egfr gfp her2 1 0 12 5 2 6 6 0 ``` All of her2 is batch2, all of egfr i…

Votes

Comment: Error in champ.load(): The following specified files do not exist

Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos

Using GRanges and IRanges to simply get all chromosome data

A: Using GRanges and IRanges to simply get all chromosome data

Comment: Reading huge bismark coverage files using bbseq::read.bismark

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