Bioconductor Ncbi geo

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NCBI GEO

updated 4.2 years ago by SAn • 0 • written 9.0 years ago by maedakus ▴ 10

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geoquery ncbi geo biobase

6.2 years ago cschot3 • 0

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2.2k

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limma differential gene expression ncbi geo affymetrix microarrays

updated 6.2 years ago by Aaron Lun ★ 28k • written 6.2 years ago by Francesca McGrath • 0

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frma barcode geneexpression gsm ncbi geo

updated 7.2 years ago by Matthew McCall ▴ 830 • written 7.2 years ago by diana.elassal • 0

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1.4k

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limma microarray bioconductor ncbi geo

updated 8.0 years ago by Gordon Smyth 52k • written 8.0 years ago by kevin.m.hao ▴ 10

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4.4k

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geoquery ncbi geo geo data

8.2 years ago fongchunchan ▴ 30

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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…

Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

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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?

C: How does edgeR cpm function calculate log(CPM) values?

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