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subseq
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Can subSeq be used for subsampling and determining RNAseq depth without performing Differential Expression?
subSeq
rarefaction
4.2 years ago
Jirapat
• 0
2
votes
5
replies
5.3k
views
How to use subSeq with DNAStringSet and information of GroupedIRanges?
subseq
Xvector
dnastringset
updated 7.9 years ago by
Hervé Pagès
16k • written 7.9 years ago by
Sophie
• 0
4
votes
7
replies
2.0k
views
how to catch an error when using subseq() in vectorized way
biostrings
subseq
updated 8.2 years ago by
Martin Morgan
25k • written 8.2 years ago by
tobias.kockmann
▴ 20
1
vote
1
reply
1.3k
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Generating ExpressionSet Objects
r
expressionset
subseq
rnaseq
updated 8.8 years ago by
Martin Morgan
25k • written 8.8 years ago by
rrcutler
▴ 70
4 results • Page
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Comment: CluserProfiler message "No gene can be mapped"
by
Carolina
• 0
There is, the overlap that reads out is ( Genes in common: 368 of 368 ). Here is the link for [background genes][1], [term2gene][2], [term2…
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…
Votes
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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