Showing : hta2.0 • reset
0
votes
2
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599
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Seeking Advice on HTA 2.0 Microarray Data Processing with Oligo Package
hta20transcriptcluster.db org.Sc.sgd.db HTA2.0 MicroRNAArrayData
9 months ago Yao Lipu • 0
0
votes
2
replies
1.6k
views
What is the best way to do annotation of the transcript clusters and filter in HTA 2.0
HTA2.0 microarray affy r
5.2 years ago Marco_aurelio • 0
2
votes
7
replies
1.9k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 5.6 years ago by 68k • written 5.6 years ago by • 0
1
vote
2
replies
2.0k
views
Inconsistent results when normalizing HTA2.0 arrays at "level=core"
oligo HTA2.0 affycoretools RMA fitProbeLevelModel
updated 6.5 years ago by 68k • written 6.5 years ago by ★ 4.1k
4
votes
4
replies
1.6k
views
arrayQualityMetrics in reading HTAfeatureSet read by oligo package
microarray hta2.0 arrayqualitymetrics
updated 7.0 years ago by ★ 6.6k • written 7.0 years ago by ▴ 10
0
votes
5
replies
2.9k
views
Help for Affymetrix HTA 2.0 [transcript (gene) version] annotation
hta2.0 annotation transcripts
updated 7.3 years ago by ▴ 840 • written 7.3 years ago by • 0
2
votes
8
replies
2.6k
views
Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
microarray scan.upc hta2.0
updated 8.0 years ago by ▴ 600 • written 8.0 years ago by • 0
1
vote
3
replies
1.9k
views
Use of RMA to get exon-level summaries for HTA 2.0
differential exon usage exon array analysis annotation hta2.0 diffsplice
updated 8.3 years ago by 68k • written 8.3 years ago by ▴ 20
2
votes
3
replies
1.9k
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 8.3 years ago by 68k • written 8.3 years ago by ▴ 20
2
votes
7
replies
3.7k
views
HTA 2.0 and Transcript level analysis
hta2.0 transcripts
8.3 years ago giroudpaul ▴ 40
0
votes
0
replies
1.5k
views
segfault when trying to convert hta20_Hs_ENSE_22.cdf to binary format
affxparser cdf hta2.0
8.5 years ago relathman ▴ 20
0
votes
0
replies
1.7k
views
Putative batch effect assessment and correction for downstream DE analysis with microarray dataset
hta2.0 limma batch effect affymetrix microarrays ComBat
8.6 years ago svlachavas ▴ 840
2
votes
3
replies
2.1k
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 8.7 years ago by 68k • written 8.7 years ago by ▴ 840
6
votes
7
replies
4.2k
views
Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with oligo for DE analysis
oligo affycoretools hta2.0 affymetrix
updated 3.6 years ago by ▴ 10 • written 8.7 years ago by ▴ 840
0
votes
0
replies
1.2k
views
(strange?) memory problem when running fitPLM on a set of HTA 2.0 arrays
affyPLM fitPLM hta2.0
9.2 years ago Guido Hooiveld ★ 4.1k
15 results • Page 1 of 1
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Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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