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1
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1.6k
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Question about topTable
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updated 15.3 years ago by ▴ 910 • written 15.3 years ago by ▴ 140
0
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0
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Question: How does limma derives its logFC value in two colored arrays?
affy limma affy limma
15.3 years ago Sunny Srivastava ▴ 350
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PlateCore questions
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updated 15.3 years ago by ▴ 40 • written 15.3 years ago by ▴ 80
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unbalanced block design using limma
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goTools question
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15.3 years ago Pete Shepard ▴ 240
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BioNet - interpretation of node score (Eva Benito Garagorri)
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15.3 years ago Daniela Beißer ▴ 20
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15.3 years ago Giulio Di Giovanni ▴ 540
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ShortRead for sequencing data quality assessment
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15.3 years ago heyi xiao ▴ 360
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snpMatrix: read.plink() allocMatrix: too many elements specified
updated 15.3 years ago by ★ 4.3k • written 15.3 years ago by ▴ 10
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5
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Package "xps" "import.expr.scheme" problem
Annotation cdf probe Annotation cdf probe
updated 15.3 years ago by ★ 3.9k • written 15.3 years ago by ▴ 80
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unbalanced block design using limma
affy limma affy limma
15.3 years ago julin@aecom.yu.edu ▴ 80
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3
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Images from exon arrays
affy affyPLM affy affyPLM
15.4 years ago • updated 15.3 years ago Popovic, Jelena ▴ 20
0
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0
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lmFit- ls vs robust help
15.3 years ago Casper Shyr ▴ 140
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10
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question regarding differential expression
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updated 15.3 years ago by 68k • written 15.3 years ago by ▴ 450
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1
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unusual behavior when concatenating DNAStringSets
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 350
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3
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IRanges: Need help speeding up sliding window analysis
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 550
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Difficulties with tileHMM's gff output
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updated 15.3 years ago by ▴ 30 • written 15.3 years ago by ▴ 40
0
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When will illuminaHumanv4BeadID.db package be available?
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updated 15.3 years ago by ★ 1.1k • written 15.3 years ago by ▴ 120
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flowStats quadrantGate and 'names'
flowViz flowViz
updated 15.3 years ago by ▴ 340 • written 15.3 years ago by ▴ 270
0
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9
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Question about CSAMA10 "Lab-8-RNAseqUseCase.pdf" tutorial on bioconductor website.
updated 15.3 years ago by ★ 13k • written 15.3 years ago by ★ 1.3k
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Position for a Computational Biologist/Geneticist, Plant Sciences, Cambridge, UK
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15.3 years ago Krys Kelly ▴ 270
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MeDIP-chip data analysis.
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15.3 years ago Jinyan Huang ▴ 50
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simulated array data
updated 15.3 years ago by ▴ 60 • written 15.3 years ago by ★ 4.1k
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0
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Sources of information about amplified genes in cancer
Cancer Cancer
15.3 years ago Daniel Brewer ★ 1.9k
0
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1
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903
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curvHDR
updated 15.3 years ago by ★ 2.0k • written 15.3 years ago by ▴ 80
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ChIPpeakAnno -findOverlappingPeaks
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15.3 years ago Julie Zhu ★ 4.3k
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fastq upload time
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updated 15.3 years ago by 21k • written 15.3 years ago by ▴ 90
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4
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Detection Above Background (DABG) on Gene Level for Exon and Gene Arrays
probe xps probe xps
updated 15.3 years ago by ★ 3.9k • written 15.3 years ago by ▴ 80
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BAF and logR for Affymetrix SNP-arrays
updated 15.3 years ago by ★ 2.4k • written 15.3 years ago by ▴ 60
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8
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[beadarray] Converting Probe IDs to ILMN Gene Names...
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15.3 years ago James Carman ▴ 150
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about ChIPpeakAnno
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15.4 years ago • updated 15.3 years ago Julie Zhu ★ 4.3k
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qPCR Event Calendar - autumn/winter 2010
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15.3 years ago qPCR Platform - the reference in real-t… ▴ 170
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error in plotKEGGGraph
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updated 15.3 years ago by ▴ 30 • written 15.3 years ago by ▴ 340
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5
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Hg18 build of org.Hs.eg.db
updated 15.3 years ago by 6.7k • written 15.3 years ago by ▴ 350
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1
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1.1k
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how to get the statistics of wilcoxon signed-rank test for the detection call of the MAS5 algorithm?
updated 15.3 years ago by 68k • written 15.4 years ago by ▴ 450
0
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1
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Setting up model for time course analysis
updated 15.3 years ago by ★ 2.0k • written 15.4 years ago by ▴ 140
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Question on copy number estimation for Affymetrix SNP array 100k and 500k
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updated 15.4 years ago by ★ 2.4k • written 15.4 years ago by ★ 4.3k
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1
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770
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help with normalization
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updated 15.4 years ago by ★ 2.0k • written 15.4 years ago by ▴ 140
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10
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QCReport: specifying alt CDF (MoGene-1_0-st-v1)?
cdf affy cdf affy
15.4 years ago Harry Mangalam ▴ 70
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4
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HTqPCR plotCtRep only accepts 2 replicates
updated 15.4 years ago by ★ 2.0k • written 15.4 years ago by ▴ 30
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questions concerning quantile normalization in HTqPCR
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updated 15.4 years ago by ★ 2.0k • written 15.4 years ago by ▴ 810
0
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6
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Question: how to obtain the clusters of genes (basically the ones in the row dendrograms) from an object obtained by heatmap.2 function
Microarray Microarray
updated 15.4 years ago by ★ 13k • written 15.4 years ago by ▴ 350
0
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Deadline for submitting a package for BioC 2.7
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15.4 years ago Hervé Pagès 16k
0
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2
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944
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pd.mapping250k.sty package: featureSet:fragment_length
updated 15.4 years ago by 68k • written 15.4 years ago by ★ 4.3k
0
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How do I get ILMN_nnnn ids?
15.4 years ago James Carman ▴ 150
0
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R/Bioc workshops at UC Riverside
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updated 15.4 years ago by ▴ 460 • written 15.4 years ago by ★ 1.7k
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about illumina data
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updated 15.4 years ago by 6.7k • written 15.4 years ago by ▴ 90
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e-LICO multi-omics prediction challenge with background knowledge on Obstructive Nephropathy
15.4 years ago Adam Woznica ▴ 10
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BioNet - interpretation of node score
Microarray Visualization Network BioNet Microarray Visualization Network BioNet
15.4 years ago Eva Benito Garagorri ▴ 70
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Oligo package crlmm method
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updated 15.4 years ago by ★ 4.3k • written 15.4 years ago by ★ 4.3k
46,730 results • Page 657 of 935
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Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0
Confirming my understanding after executing the code provided: this is similar to a design formula of `~0+mouse+group+group:allele`, except…
Comment: Combining two proteomics datasets with limpa by Andrew Pattison • 0
Thanks heaps Gordon. I went with option 1 and no normalisation and all seems to have worked well. Cheers, Andrew
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
Flagging protein groups as likely contaminants in this way will be fine for a limpa analysis. The `Cont_` proteins can optionally stay in f…
Answer: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Gordon Smyth 53k
Aaron Lun was a PhD student in my Lab back in 2015, when he posted the answers about allele-specific expression that you and Mike Love have…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Michael Love 43k
You just need the mouse identifier (controls baseline) and the group specific allelic effect.
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Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
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