Bioconductor Spike-in

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Spike-in RNASeqR DESeq2 Normalization rna-seq

updated 17 months ago by manuel.fernandez • 0 • written 2.8 years ago by cicely.day • 0

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deseq2 apeglm rna-seq spike-in

updated 4.5 years ago by Michael Love 43k • written 4.5 years ago by nadezda.fursova ▴ 10

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deseq2 Tximport Sizefactors normalizationfactors spike-in

updated 4.6 years ago by Michael Love 43k • written 4.6 years ago by Hina Bandukwala • 0

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1.3k

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scran spike-in

6.9 years ago • updated 6.8 years ago supremerulersuraj • 0

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3.7k

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deseq2 ruvseq spike-in time course time series

updated 7.1 years ago by davide risso ▴ 980 • written 7.1 years ago by staceyborrego ▴ 20

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Comment: Sample-specific methylation values using QSEA by User3088 • 0

Thanks Simon. I got the sample-specific methylation values by using '**samples=getSampleNames**' ``` result=makeTable(qs=prad_QSEAset, glm=…

Comment: input for singR function by iamin053 • 0

Hi Paria, I'm wondering if you were able to get an answer on this please. I would greatly appreciate any comments!

Comment: build samplesheet and plot profile by yf • 0

![enter image description here][1] [1]: /media/images/8ea93bd0-bc90-443d-a332-4701f54a

Answer: I am having issues with bowtie2_build by James W. MacDonald 67k

Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…

Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k

Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…

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Unused arguments error without used arguments in GSVA?

Answer: Is it always preferable to recount library sizes of DGEList object in edgeR afte

A: Doubt about the "zero expression" genes or genes with no reads at all in the co

Answer: Unable to install nloptr

Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?

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