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2.0k
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Wait for user input with readline() while running a whole set of program
readline
scan
6.8 years ago
shadhiksk
• 0
1
vote
7
replies
1.8k
views
Ballgown object construction error
ballgown
scan
error
package
6.9 years ago • updated 6.8 years ago
spaque57
• 0
1
vote
5
replies
1.8k
views
Log2FC values very small with SCAN
scan
Log2FC
updated 8.8 years ago by
Gordon Smyth
50k • written 8.8 years ago by
Vani
▴ 20
0
votes
0
replies
1.3k
views
scan() error when using biomaRt::getBM()
biomart
scan
error
8.6 years ago
enricoferrero
▴ 660
0
votes
3
replies
1.2k
views
Comparing SCAN Q.value with Meta-Analyses Q.Value
scan.upc
scan
meta
q value
8.4 years ago
Jo
▴ 30
0
votes
4
replies
1.2k
views
Issues with normalizing viral-infected single cell data
scan
scater
single cell
normalization
updated 4.1 years ago by
Aaron Lun
★ 28k • written 4.1 years ago by
Jenny Drnevich
★ 2.0k
6 results • Page
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Comment: How to retrieve gene ontology GO class from gene list?
by
bandconductor
• 0
Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…
Comment: PCA plot suggestions
by
JKim
• 0
cross post: https://www.biostars.org/p/9593486/
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…
Votes
Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
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