Showing : frma • reset
0
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*** caught segfault *** , cause 'memory not mapped'
affycoretools FRMA affyio AffymetrixDataTestFiles affy
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
0
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2
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1.5k
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Ask for help on the preprocessing of GEO microarray data with Oligo and affy package
affy rma frma oligo
updated 5.5 years ago by 68k • written 5.5 years ago by • 0
4
votes
5
replies
1.8k
views
fRMA results different for Windows and Linux
frma expr gene expression data affy
updated 7.0 years ago by 68k • written 7.0 years ago by • 0
0
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2
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1.2k
views
HG-U219 vectors for fRMA?
frma frmatools
updated 7.1 years ago by ▴ 830 • written 7.1 years ago by • 0
2
votes
3
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3.1k
views
hgu133plus2hsentrezgcdf or hgu133ahsentrezgcdf packages not installing
readaffy frma affy package installation hgu133a
7.2 years ago Chris Mancuso • 0
0
votes
5
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1.9k
views
How to normalize mouse gene 1.0st arry using frma?
microarray frma
updated 7.2 years ago by • 0 • written 8.0 years ago by • 0
3
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1
reply
2.3k
views
Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 7.5 years ago by ▴ 830 • written 7.5 years ago by • 0
0
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3
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1.6k
views
fRMA normalization for Mouse Gene 2.1 ST Array
frma affymetrix mouse gene arrays
updated 8.0 years ago by ▴ 830 • written 8.0 years ago by ▴ 40
3
votes
9
replies
2.5k
views
About the best use of frma for several GEO Series
frma normalization preprocessing
updated 8.4 years ago by ▴ 830 • written 8.4 years ago by ▴ 20
1
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4
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1.4k
views
Summarization probe ID to gene : FRMA
summarization FRMA affy
updated 8.6 years ago by 68k • written 8.6 years ago by ▴ 20
0
votes
4
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2.0k
views
fRMA error - unable to create unique mapping
frma frmatools affy
updated 8.6 years ago by ▴ 830 • written 8.6 years ago by • 0
0
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0
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1.3k
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In the frmaTools package, how can I makeVectorsFeatureSet() output include probeVecCore like the pre-built vectors?
frma frmatools affymetrix microarrays
9.2 years ago jperezrogers • 0
2
votes
5
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2.2k
views
fRMA: Applying mouse4302frmavecs on HT_MG-430_PM Arrays
frma microarray affiymetrix
9.3 years ago Matthias Z. ▴ 20
0
votes
3
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1.9k
views
frma: "mogene.2.0.stfrmavecs" availability?? - Gene Barcode 3.0
frma affymetrix barcode
updated 9.3 years ago by ▴ 830 • written 9.3 years ago by • 0
7
votes
6
replies
6.2k
views
How to use brainarray custom cdf with oligo package?
oligo customcdf HTA frma
updated 9.7 years ago by 68k • written 9.7 years ago by ▴ 20
1
vote
3
replies
1.7k
views
Problem with frma median_polish
software error frma
updated 9.7 years ago by ▴ 830 • written 9.7 years ago by ▴ 20
1
vote
5
replies
2.4k
views
Appropriate merge of batches of the same array to create a final total ExpressionSet
frma bioconductor batcheffect Primeview insilicomerging
updated 10.1 years ago by ▴ 830 • written 10.1 years ago by ▴ 840
2
votes
2
replies
1.7k
views
Strategies for fRMA on custom dataset(s)?
frma frmatools
updated 10.3 years ago by ▴ 830 • written 10.3 years ago by ★ 7.9k
2
votes
8
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3.2k
views
frma vectors for GPL13158 (Affymetrix HT HG-U133+ PM Array Plate)?
frma frmatools
updated 10.3 years ago by ▴ 830 • written 10.3 years ago by ★ 7.9k
0
votes
2
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1.5k
views
How many arrays are "enough" for creating useful fRMA vectors?
annotation frma frmatools
updated 10.4 years ago by ▴ 830 • written 10.4 years ago by ★ 4.2k
0
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2
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1.8k
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barcode support for other platforms
frma
updated 10.7 years ago by ▴ 830 • written 10.7 years ago by ★ 13k
0
votes
5
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2.2k
views
Single sample normalization of single-channel Agilent microarrays
affy frma SCAN.UPC affy frma SCAN.UPC
updated 10.7 years ago by ★ 7.9k • written 10.7 years ago by ★ 13k
0
votes
9
replies
3.3k
views
frma and alternative CDFs
GO cdf frma BRAIN GO cdf frma BRAIN
updated 10.8 years ago by ▴ 830 • written 10.8 years ago by ★ 13k
0
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6
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3.4k
views
processing Illumina HT12v4.0 expression data from GEO
Normalization affy PROcess GEOquery frma Normalization affy PROcess GEOquery frma
updated 10.8 years ago by 21k • written 10.8 years ago by ▴ 190
0
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0
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1.4k
views
R hthgu133afrmavecs_1.1.0 error: row.effects should sum to zero
GO probe PROcess frma GO probe PROcess frma
10.9 years ago Matthew McCall ▴ 830
0
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6
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3.8k
views
converting probeset id to gene id's : fRMA
probe affy convert frma probe affy convert frma
updated 10.9 years ago by ★ 3.0k • written 10.9 years ago by ▴ 190
0
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1
reply
1.7k
views
fRMA- more issues with custom CDFs
GO probe frma GO probe frma
updated 11.1 years ago by ▴ 830 • written 11.1 years ago by ▴ 110
0
votes
1
reply
1.4k
views
fRMA- more issues with custom CDFs
GO probe frma GO probe frma
updated 11.3 years ago by ▴ 830 • written 11.3 years ago by ▴ 110
0
votes
1
reply
2.1k
views
fRMA for Gene ST arrays
Microarray probe oligo frma Microarray probe oligo frma
updated 11.3 years ago by ▴ 830 • written 11.3 years ago by ▴ 10
0
votes
9
replies
2.8k
views
using frma and brainarray cdf on exon arrays
cdf affy PROcess oligo xps frma cdf affy PROcess oligo xps frma
updated 11.4 years ago by ▴ 600 • written 11.4 years ago by ▴ 100
0
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3
replies
1.2k
views
Fwd: Annotation discrepancy
probe frma probe frma
updated 11.4 years ago by 68k • written 11.4 years ago by ▴ 30
0
votes
0
replies
1.4k
views
Annotation discrepancy HT HGU 133+ PM chip
probe frma probe frma
11.4 years ago Eric Zollars ▴ 30
0
votes
1
reply
1.2k
views
combination of frma, combat and barcode methods
frma frma
updated 11.5 years ago by ▴ 830 • written 11.5 years ago by ▴ 50
0
votes
5
replies
2.1k
views
SCAN.UPC for Illumina arrays?
RNASeq qPCR affy oligo frma RNASeq qPCR affy oligo frma
updated 11.5 years ago by ▴ 600 • written 11.5 years ago by ★ 4.2k
0
votes
2
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5.3k
views
Normalization before ComBat
Microarray Normalization probe affy frma Microarray Normalization probe affy frma
updated 11.6 years ago by ▴ 40 • written 11.6 years ago by ▴ 870
0
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2
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1.5k
views
looking for data file for ATH1 (GPL198)
PROcess frma PROcess frma
updated 11.6 years ago by ▴ 50 • written 11.6 years ago by ▴ 830
0
votes
2
replies
1.9k
views
frma normalization and batch effects
Normalization frma Normalization frma
updated 11.7 years ago by ★ 13k • written 11.8 years ago by ★ 13k
0
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0
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1.3k
views
回复: Re: fRMA package
affxparser frma GenomicRanges affxparser frma GenomicRanges
11.8 years ago Hanyine ▴ 30
0
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0
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1.5k
views
FW: fRMA package
affxparser frma GenomicRanges affxparser frma GenomicRanges
11.8 years ago Li Liu ▴ 100
0
votes
1
reply
1.3k
views
frmaTools library error :: makeVectorsAffyBatch() function
Microarray probe frma frmaTools Microarray probe frma frmaTools
updated 12.0 years ago by ▴ 830 • written 12.0 years ago by ▴ 70
0
votes
1
reply
1.4k
views
fRMA without using ReadAffy()
frma SCAN.UPC frma SCAN.UPC
updated 12.0 years ago by ▴ 830 • written 12.0 years ago by ▴ 10
0
votes
0
replies
1.2k
views
Normalizing a dataset from GEO to suit a classifier trained on another dataset
Microarray Normalization Preprocessing probe affy preprocessCore frma Microarray probe
12.1 years ago Matthew McCall ▴ 830
0
votes
1
reply
1.3k
views
fRMA for Gene ST arrays
affy oligo frma ASSIGN affy oligo frma ASSIGN
updated 12.1 years ago by ▴ 830 • written 12.1 years ago by ▴ 100
0
votes
6
replies
1.9k
views
barcode with custom CDF
cdf frma frmaTools cdf frma frmaTools
updated 12.2 years ago by ▴ 600 • written 12.2 years ago by ★ 13k
0
votes
3
replies
2.0k
views
Using fRMA with "alternative" CDF files
Normalization cdf frma Normalization cdf frma
updated 12.4 years ago by ▴ 830 • written 12.4 years ago by ▴ 110
0
votes
2
replies
1.7k
views
frma for Nimblegen arrays?
Microarray Annotation Normalization affy PROcess safe frma frmaTools Microarray affy
updated 12.5 years ago by ★ 4.3k • written 12.5 years ago by ▴ 260
0
votes
0
replies
1.3k
views
Issue with Genome Graphs
Annotation simpleaffy oligo GenomeGraphs frma Annotation simpleaffy oligo GenomeGraphs
12.5 years ago Jeremy Ng ▴ 180
0
votes
1
reply
1.5k
views
[combat] UPC availablility
affy frma SCAN.UPC affy frma SCAN.UPC
updated 12.5 years ago by ▴ 600 • written 12.5 years ago by ▴ 870
0
votes
5
replies
1.8k
views
frma for Nimblegen arrays?
Microarray Normalization affy PROcess safe frma Microarray Normalization affy PROcess
updated 12.6 years ago by ▴ 830 • written 12.6 years ago by ▴ 260
0
votes
2
replies
1.5k
views
New Bioconductor Package: SCAN.UPC
Normalization affy frma Normalization affy frma
updated 12.6 years ago by ▴ 600 • written 12.6 years ago by ▴ 870
50 results • Page 1 of 1
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Answer: Typo in the help of lmFit() by Gordon Smyth 52k
Thanks for the heads-up. > The _Details_ in the documentation of lmFit() still says that the default correlation is 0.75 Yes, you're righ…
Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by caroline.zanchi ▴ 10
Thank you ! ![enter image description here][1] In the end I did ```r rn2 <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "GENENAME"…
Answer: Memory issue while using "quickcluster" and "computeSumFactors" functions on sin by James W. MacDonald 68k
The obvious solution is to use cloud computing, which is likely cheaper than getting more RAM for your computer.
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by James W. MacDonald 68k
``` library(org.Dm.eg.db) rn <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "SYMBOL","FLYBASE") ## ensure no NA values get propaga…
Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0
Thank you for your explanation, that makes sense. Do you have any suggestions on how to deal with this issue? if it is an issue? especially…
Votes
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
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