Showing : SCAN.UPC • reset
1
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SCAN UPC normalisation
normalization scan.upc
9.1 years ago • updated 9.0 years ago sanj ▴ 20
2
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8
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1.9k
views
Transcript-level SCAN.UPC preprocessing for Affymetrix HTA 2.0 arrays
microarray scan.upc hta2.0
updated 6.3 years ago by ▴ 590 • written 6.3 years ago by • 0
0
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1
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1.2k
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[combat] UPC availablility
affy frma SCAN.UPC affy frma SCAN.UPC
updated 11.5 years ago by ▴ 590 • written 11.5 years ago by ▴ 850
0
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1
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1.4k
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SCAN-UPC: 12079 of 22283 probes returned for hgu133a CELs?
hgu133a probe affy SCAN.UPC hgu133a probe affy SCAN.UPC
updated 11.1 years ago by ▴ 20 • written 11.1 years ago by ▴ 590
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1
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1.5k
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SCAN-UPC: 12079 of 22283 probes returned for hgu133a CELs?
Normalization hgu133a probe affy PROcess SCAN.UPC Normalization hgu133a probe affy
updated 10.9 years ago by ▴ 20 • written 10.9 years ago by ▴ 590
0
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1
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1.2k
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fRMA without using ReadAffy()
frma SCAN.UPC frma SCAN.UPC
updated 10.9 years ago by ▴ 830 • written 10.9 years ago by ▴ 10
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2
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1.5k
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SCAN.UPC vs NUSE
affy affyPLM SCAN.UPC affy affyPLM SCAN.UPC
updated 10.6 years ago by ▴ 590 • written 10.6 years ago by ▴ 10
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3
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1.3k
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ParseMetaFromGtfFile is.na() error
Annotation SCAN.UPC Annotation SCAN.UPC
updated 9.9 years ago by ★ 11k • written 9.9 years ago by ★ 13k
2
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4
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1.2k
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SCAN.UPC : lost too many samples from GSE (BrainArray + ConvThreshold)
SCAN.UPC probe normalization GEOdata cancer
5.0 years ago s.goncalvesclaro ▴ 10
0
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1
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1.3k
views
SCAN UPC probability - validation of gene expression results using UPC
hgu133a2 safe SCAN.UPC hgu133a2 safe SCAN.UPC
updated 11.4 years ago by ▴ 590 • written 11.4 years ago by ▴ 850
0
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3
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1.5k
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SCAN.UPC giving error for multiple input files
scan.upc
updated 8.7 years ago by ▴ 590 • written 8.7 years ago by ▴ 20
0
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1
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1.2k
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SCAN.UPC eset not providing phenoData
scan.upc eset
updated 8.7 years ago by ▴ 590 • written 8.7 years ago by ▴ 30
0
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1
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1.2k
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RNA-Seq Read Counts for SCAN.UPC
scan.upc rnaseq
updated 8.3 years ago by ▴ 590 • written 8.4 years ago by ▴ 30
0
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1
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1.2k
views
UPC RNA-Seq individual samples
scan.upc upc rnaseq
updated 8.3 years ago by ▴ 590 • written 8.3 years ago by ▴ 30
0
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2
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1.5k
views
UPC method giving error for Microarray dataset
scan.upc UPC
updated 8.3 years ago by ▴ 590 • written 8.3 years ago by ▴ 20
0
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2
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1.4k
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UPC correction for GC content?
scan.upc upc_generic_expressionset upc
updated 8.2 years ago by ▴ 590 • written 8.2 years ago by • 0
1
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2
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1.1k
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UPC transposes output data
scan.upc
updated 7.2 years ago by ▴ 590 • written 7.2 years ago by ▴ 10
4
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13
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2.0k
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Why is batch effect correction an option in SCAN.UPC normalization?
scan.upc upc normalization batch effect correction
updated 5.7 years ago by ▴ 590 • written 5.7 years ago by • 0
1
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4
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1.2k
views
ParseMetaFromGtfFile() from SCAN.UPC package fails to produce annotation file
annotation SCAN.UPC
updated 6.6 years ago by ▴ 590 • written 6.6 years ago by ▴ 50
0
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5
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1.8k
views
Single sample normalization of single-channel Agilent microarrays
affy frma SCAN.UPC affy frma SCAN.UPC
updated 9.7 years ago by ★ 7.9k • written 9.7 years ago by ★ 13k
2
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13
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2.8k
views
SCAN.UPC: exception thrown when loading GEOQuery
scan.upc geoquery rcurl
9.3 years ago lep ▴ 90
0
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1
reply
1.2k
views
SCAN.UPC for Agilent single channel and Illumina
microarray scan.upc
updated 9.2 years ago by ▴ 590 • written 9.2 years ago by • 0
0
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4
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1.6k
views
SCAN-normalized values on log2 scale?
scan.upc
updated 8.7 years ago by ▴ 590 • written 8.7 years ago by ★ 2.0k
0
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0
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880
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FYI: SCAN.UPC and HuGene 1/2 arrays
SCAN.UPC SCAN.UPC
9.8 years ago Stephen Piccolo ▴ 590
0
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0
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1.1k
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about expression value generated by SCAN UPC package
SCAN.UPC SCAN.UPC
11.1 years ago gregory voisin ▴ 430
0
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3
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1.2k
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Comparing SCAN Q.value with Meta-Analyses Q.Value
scan.upc scan meta q value
8.4 years ago Jo ▴ 30
1
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3
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1.2k
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Normalization of multiple HTA 2.0 arays using SCAN.UPC
scan.upc
6.4 years ago Seymoo • 0
0
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0
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1.2k
views
Problem when trying to use \'affy\' package
Normalization GO affy sva SCAN.UPC Normalization GO affy sva SCAN.UPC
10.2 years ago Kaj Chokeshaiusaha ▴ 140
1
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2
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1.4k
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Problem Installing SCAN.UPC
scan.upc installation bioconductor
8.7 years ago Vani ▴ 20
0
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9
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2.3k
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Question about Agilent microarray data measurement
Agilent limma scan.upc microarray
7.4 years ago Maximilian ▴ 10
0
votes
1
reply
992
views
Error when using write.table() with SCAN.UPC ESET
scan.upc write.table
8.7 years ago Vani ▴ 20
0
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1
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1.2k
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Error with SCAN.UPC UPC_RNASeq method
scan.upc RNA-Seq UPC
8.3 years ago vn • 0
32 results • Page 1 of 1
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Answer: OrgDb for maize by James W. MacDonald 65k
``` > library(AnnotationHub) > hub <- AnnotationHub() |===========================| 100% snapshotDate(): 2023-10-23 > query(hu…
Comment: Which input file is used for DGEList in EgdeR? by i.atanasoai • 0
Understood, Thank you very much for the reply, very kind.
Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts by Michael Love 41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
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Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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