Bioconductor Pileup

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786

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Pysam pileup Rsamtools RNASeq

18 months ago Xinqi • 0

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580

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Rsamtools pileup

21 months ago romain.lannes • 0

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704

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Rsamtools pileup

24 months ago alexandr.gopanenko ▴ 50

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711

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Rsamtools pileup

2.2 years ago JoeMG • 0

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996

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Rsamtools pileup insertion deletion

4.6 years ago madsheilskov ▴ 10

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Rsamtools pileup number of reads

updated 5.2 years ago by Martin Morgan 25k • written 5.2 years ago by mgray ▴ 10

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1.3k

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pileup rsamtools

updated 7.2 years ago by Martin Morgan 25k • written 7.2 years ago by Jeremy Leipzig ▴ 70

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rsamtools pileup

8.6 years ago oscar puig • 0

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1.3k

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Rsamtools GAlignments pileup

updated 8.9 years ago by Martin Morgan 25k • written 8.9 years ago by jesper.gadin ▴ 10

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rsamtools pileup

9.0 years ago TimothéeFlutre ▴ 80

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1.7k

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rsamtools pileup

9.2 years ago komal.rathi ▴ 120

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2.8k

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pileup rsamtools bam genomicalignments

updated 9.8 years ago by Nathaniel Hayden ▴ 180 • written 9.9 years ago by Sam Buckberry • 0

12 results • Page 1 of 1

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Comment: Differing results with DESeq2 by JKim • 0

My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …

Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k

Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…

Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k

This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…

Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80

Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…

Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0

That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…

Votes

A: Unbalanced experiment with multiple samples from each patient.

A: Understanding contrasts limma

Answer: ROAST for small sets

A: conceptual question about FDR, FDR adjusted p-value and q-value

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