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hta2.0
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0
votes
2
replies
1.1k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0
microarray
affy
r
3.8 years ago
Marco_aurelio
• 0
2
votes
7
replies
1.3k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy
rna
hta2.0
r
updated 4.1 years ago by
James W. MacDonald
66k • written 4.1 years ago by
Marco_aurelio
• 0
1
vote
2
replies
1.5k
views
Inconsistent results when normalizing HTA2.0 arrays at "level=core"
oligo
HTA2.0
affycoretools
RMA
fitProbeLevelModel
updated 5.0 years ago by
James W. MacDonald
66k • written 5.0 years ago by
Guido Hooiveld
★ 4.0k
4
votes
4
replies
1.2k
views
arrayQualityMetrics in reading HTAfeatureSet read by oligo package
microarray
hta2.0
arrayqualitymetrics
updated 5.6 years ago by
Mike Smith
★ 6.5k • written 5.6 years ago by
RV
▴ 10
0
votes
5
replies
2.0k
views
Help for Affymetrix HTA 2.0 [transcript (gene) version] annotation
hta2.0
annotation
transcripts
updated 5.8 years ago by
svlachavas
▴ 830 • written 5.8 years ago by
Biomed
• 0
2
votes
8
replies
1.9k
views
Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
microarray
scan.upc
hta2.0
updated 6.5 years ago by
Stephen Piccolo
▴ 590 • written 6.5 years ago by
Lukas__
• 0
1
vote
3
replies
1.4k
views
Use of RMA to get exon-level summaries for HTA 2.0
differential exon usage
exon array analysis
annotation
hta2.0
diffsplice
updated 6.8 years ago by
James W. MacDonald
66k • written 6.8 years ago by
relathman
▴ 20
2
votes
3
replies
1.5k
views
Filtering of lowly expressed probes in HTA 2.0 using new pd.hta.2.0 version 3.12.2
pd.hta.2.0
hta2.0
affycoretools
updated 6.9 years ago by
James W. MacDonald
66k • written 6.9 years ago by
relathman
▴ 20
2
votes
7
replies
2.8k
views
HTA 2.0 and Transcript level analysis
hta2.0
transcripts
6.9 years ago
giroudpaul
▴ 40
0
votes
0
replies
1.1k
views
segfault when trying to convert hta20_Hs_ENSE_22.cdf to binary format
affxparser
cdf
hta2.0
7.0 years ago
relathman
▴ 20
0
votes
0
replies
1.3k
views
Putative batch effect assessment and correction for downstream DE analysis with microarray dataset
hta2.0
limma
batch effect
affymetrix microarrays
ComBat
7.2 years ago
svlachavas
▴ 830
2
votes
3
replies
1.6k
views
Problem with memory limit in Rstudio/Windows when importing Affymetrix HTA 2.0 CEL files with oligo R package
oligo
hta2.0
affymetrix microarrays
memory problem
updated 7.2 years ago by
James W. MacDonald
66k • written 7.2 years ago by
svlachavas
▴ 830
6
votes
7
replies
3.3k
views
Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with oligo for DE analysis
oligo
affycoretools
hta2.0
affymetrix
updated 2.1 years ago by
Yang Shi
▴ 10 • written 7.2 years ago by
svlachavas
▴ 830
0
votes
0
replies
923
views
(strange?) memory problem when running fitPLM on a set of HTA 2.0 arrays
affyPLM
fitPLM
hta2.0
7.8 years ago
Guido Hooiveld
★ 4.0k
14 results • Page
1 of 1
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Comment: Ranking the GSEA Results
by
Lluís Revilla Sancho
▴ 730
You can have the ranking without the cutoff. If you don't keep any gene set after the cutoff then there is nothing to rank as you said, so…
Answer: Create a Graph w/ Only the Genes Interaction
by
Antonio
• 0
Thank you all, I solved my issue by creating a for loop. Cheers!
Comment: Ranking the GSEA Results
by
alserg
▴ 270
Apparently, it sends a notification to the developer on a new message after the tags were updated :) but not the change of tags itself
Comment: Ranking the GSEA Results
by
alserg
▴ 270
Where did you see ranking of genes by `log2FC * (-log10 p-value)`? I don't think I ever saw one and not sure what it should achieve. Aren't…
Comment: Trouble Installing DADA2 (warning: R new user)
by
shepherl
3.9k
As far as this ERROR for Bioc requires R version, Bioconductor is closely tied to an R release. Depending if you tried to use a premade s…
Votes
Comment: Ranking the GSEA Results
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
Comment: How to get the DMR?
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
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