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pd.hugene.2.0.st
•
reset
4
votes
10
replies
2.3k
views
Limma/oligo always crashing
limma
microarray
pd.hugene.2.0.st
hugene20
oligo
8.2 years ago
hakimelakhrass
• 0
1
vote
8
replies
1.7k
views
boxplot, microarray, hugene 2.0 st
boxplot
microarray
pd.hugene.2.0.st
9.1 years ago • updated 9.0 years ago
kanacska
▴ 10
9
votes
6
replies
3.9k
views
Preprocessing of Human Gene 2.0 ST microarrays with oligo R package and annotation options
microarray
oligo
affycoretools
pd.hugene.2.0.st
hugene20sttranscriptcluster.db
updated 7.2 years ago by
James W. MacDonald
65k • written 7.2 years ago by
svlachavas
▴ 830
1
vote
5
replies
1.2k
views
Correct annotation R package for human clariom array analysis
clariom
oligo
affycoretools
pd.hugene.2.0.st
updated 5.1 years ago by
James W. MacDonald
65k • written 5.1 years ago by
svlachavas
▴ 830
1
vote
5
replies
1.7k
views
HuGene2.0 array annotation
annotation
oligo
pd.hugene.2.0.st
8.5 years ago
sylvia
▴ 10
6
votes
5
replies
1.8k
views
Limma ebayes returns a list with Affy pd.hugene.2.0.st arrays
ebayes
expression
affymetrix
pd.hugene.2.0.st
limma
updated 9.3 years ago by
Gordon Smyth
50k • written 9.3 years ago by
Paulo Nuin
▴ 200
0
votes
3
replies
2.6k
views
Reading Affymetrix data from pd.hugene.2.0.st using affy
affy
pd.hugene.2.0.st
hugene20
annotation
microarray
9.1 years ago
kanacska
▴ 10
0
votes
0
replies
1.3k
views
Reading Affymetrix data from pd.hugene.2.0.st using oligo for RNA degradation plot
oligo
rnadegradationplot
affymetrix microarrays
pd.hugene.2.0.st
8.2 years ago
Biologist
▴ 110
8 results • Page
1 of 1
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Replies
Comment: Differences in differential analysis methods for RNA-Seq
by
ATpoint
★ 4.1k
MAGeCK is a command line tool that is easy to use. I recommend you use it because a) the logFCs from DESeq2 and MAGeCK will be very similar…
Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Votes
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
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siajunren
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Rory Stark
★ 5.2k
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tangming2005
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Ian D.
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junhui.li11
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