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Alternative to BrainArray custom CDF packages for Affymetrix chips?
Bioconductor
2 days ago Stephen Piccolo ▴ 600
0
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3
replies
318
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Sharing a collection of datasets in ExperimentHub
Bioconductor
updated 6 weeks ago by ★ 29k • written 7 weeks ago by ▴ 600
11
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5
replies
1.8k
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Building an HDF5Array/DelayedArray object incrementally
delayedarray
updated 5.2 years ago by 68k • written 5.2 years ago by ▴ 600
1
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0
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4.3k
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Comment: C: Which of these (raw count, scaled estimate, normalized_results ) data of TCGA is
5.6 years ago Stephen Piccolo ▴ 600
1
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0
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1.8k
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Comment: C: SCAN.UPC : lost too many samples from GSE (BrainArray + ConvThreshold)
6.6 years ago Stephen Piccolo ▴ 600
0
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1
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1.8k
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Comment: C: SCAN.UPC : lost too many samples from GSE (BrainArray + ConvThreshold)
6.6 years ago Stephen Piccolo ▴ 600
2
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1
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3.1k
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Comment: C: Why is batch effect correction an option in SCAN.UPC normalization?
7.3 years ago Stephen Piccolo ▴ 600
0
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1
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3.1k
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Comment: C: Why is batch effect correction an option in SCAN.UPC normalization?
7.3 years ago Stephen Piccolo ▴ 600
0
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1
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3.1k
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Comment: C: Why is batch effect correction an option in SCAN.UPC normalization?
7.3 years ago Stephen Piccolo ▴ 600
0
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1
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3.1k
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Comment: C: Why is batch effect correction an option in SCAN.UPC normalization?
7.3 years ago Stephen Piccolo ▴ 600
0
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1
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3.1k
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Comment: C: Why is batch effect correction an option in SCAN.UPC normalization?
7.3 years ago Stephen Piccolo ▴ 600
2
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1
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3.1k
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Answer: A: Why is batch effect correction an option in SCAN.UPC normalization?
7.3 years ago Stephen Piccolo ▴ 600
0
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0
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2.6k
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Comment: C: Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
7.9 years ago Stephen Piccolo ▴ 600
0
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1
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2.6k
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Comment: C: Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
7.9 years ago Stephen Piccolo ▴ 600
0
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1
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2.6k
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Answer: A: Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
7.9 years ago Stephen Piccolo ▴ 600
1
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2
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2.6k
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Comment: C: Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
7.9 years ago Stephen Piccolo ▴ 600
1
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0
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1.6k
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Comment: C: Normalization of multiple HTA 2.0 arays using SCAN.UPC
8.0 years ago Stephen Piccolo ▴ 600
0
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1
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1.6k
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Comment: C: Normalization of multiple HTA 2.0 arays using SCAN.UPC
8.0 years ago Stephen Piccolo ▴ 600
1
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1
reply
1.7k
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Answer: A: ParseMetaFromGtfFile() from SCAN.UPC package fails to produce annotation file
8.2 years ago Stephen Piccolo ▴ 600
0
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1
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1.7k
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Comment: C: ParseMetaFromGtfFile() from SCAN.UPC package fails to produce annotation file
8.2 years ago Stephen Piccolo ▴ 600
1
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5
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3.5k
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Error with read.idat() function in illuminaio package
illuminaio normalization
updated 8.5 years ago by ▴ 1000 • written 10.3 years ago by ▴ 600
1
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0
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4.7k
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Comment: C: Problem about use of tcga rna-seq rsem gene results for regularized cox regressi
8.7 years ago Stephen Piccolo ▴ 600
1
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0
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1.5k
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Answer: A: UPC transposes output data
8.7 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.5k
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Comment: C: UPC transposes output data
8.7 years ago Stephen Piccolo ▴ 600
0
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1
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2.8k
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Comment: C: About the best use of frma for several GEO Series
8.9 years ago Stephen Piccolo ▴ 600
0
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1
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4.6k
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Comment: C: Getting a flat metadata table from the XML files in TCGA: is it feasible?
9.0 years ago Stephen Piccolo ▴ 600
0
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1
reply
3.2k
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Comment: C: Question about Agilent microarray data measurement
9.0 years ago Stephen Piccolo ▴ 600
0
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0
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3.2k
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Comment: C: Question about Agilent microarray data measurement
9.0 years ago Stephen Piccolo ▴ 600
0
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1
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3.2k
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Comment: C: Question about Agilent microarray data measurement
9.0 years ago Stephen Piccolo ▴ 600
0
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1
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3.2k
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Comment: C: Question about Agilent microarray data measurement
9.0 years ago Stephen Piccolo ▴ 600
0
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1
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3.2k
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Comment: C: Question about Agilent microarray data measurement
9.0 years ago Stephen Piccolo ▴ 600
0
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1
reply
1.9k
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Answer: A: UPC correction for GC content?
9.7 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.8k
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Answer: A: UPC method giving error for Microarray dataset
9.9 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.8k
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Comment: C: UPC method giving error for Microarray dataset
9.9 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.5k
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Comment: C: Error with SCAN.UPC UPC_RNASeq method
9.9 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.5k
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Answer: A: UPC RNA-Seq individual samples
9.9 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.9k
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Job: Graduate Student in Cancer Genomics / Machine Learning Brigham Young University
machinelearning cancer Job
9.9 years ago Stephen Piccolo ▴ 600
0
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0
replies
1.5k
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Answer: A: RNA-Seq Read Counts for SCAN.UPC
9.9 years ago Stephen Piccolo ▴ 600
3
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1
reply
1.8k
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Use BAM file created from subjunc function (Rsubread package) for feature counts?
rsubread subjunc
updated 10.3 years ago by ★ 3.6k • written 10.3 years ago by ▴ 600
0
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0
replies
1.6k
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Answer: A: SCAN.UPC eset not providing phenoData
10.3 years ago Stephen Piccolo ▴ 600
1
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1
reply
15k
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Comment: C: Can I feed TCGA normalized count data to EdgeR for differential gene expression
updated 10.3 years ago by ★ 13k • written 10.3 years ago by ▴ 600
0
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0
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1.9k
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Comment: C: SCAN.UPC giving error for multiple input files
10.3 years ago Stephen Piccolo ▴ 600
0
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1
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1.9k
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Answer: A: SCAN.UPC giving error for multiple input files
10.3 years ago Stephen Piccolo ▴ 600
0
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1
reply
2.1k
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Comment: C: "Some normalization factors are zero" error on cn.mops
10.3 years ago Stephen Piccolo ▴ 600
1
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3
replies
2.1k
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"Some normalization factors are zero" error on cn.mops
cn.mops
updated 10.3 years ago by ▴ 540 • written 10.3 years ago by ▴ 600
0
votes
1
reply
2.1k
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Answer: A: SCAN-normalized values on log2 scale?
10.3 years ago Stephen Piccolo ▴ 600
1
vote
1
reply
1.8k
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Comment: C: Problem Installing SCAN.UPC
10.3 years ago Stephen Piccolo ▴ 600
0
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1
reply
2.4k
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Comment: C: Log2FC values very small with SCAN
10.3 years ago Stephen Piccolo ▴ 600
0
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1
reply
2.4k
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Answer: A: Log2FC values very small with SCAN
10.3 years ago Stephen Piccolo ▴ 600
1
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0
replies
4.9k
views
Comment: C: normalization with mas5
10.4 years ago Stephen Piccolo ▴ 600
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