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Request for the assistance to use MEDME
Microarray Normalization Organism probe limma MEDME cycle ASSIGN Microarray Normalization
updated 15.3 years ago by ▴ 30 • written 15.3 years ago by ▴ 90
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JOB: Microarray Bioinformatics Specialist
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16.2 years ago Robert Castelo ★ 3.2k
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Reading in data with HTqPCR
Cancer cycle Cancer cycle
updated 13.9 years ago by ▴ 40 • written 13.9 years ago by ★ 2.0k
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affy : ReadAffy() fails on HuGene-1_1-st-v1 chips
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updated 12.2 years ago by 65k • written 12.2 years ago by ▴ 630
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Release 1.1
cycle cycle
21.5 years ago Jeff Gentry ★ 3.9k
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811
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Re: webbioc and multtest
webbioc cycle webbioc cycle
20.4 years ago Colin A. Smith ▴ 220
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affy 1 cycle vs 2 cycle labeling kit
cycle cycle
updated 19.9 years ago by ▴ 130 • written 19.9 years ago by ▴ 140
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4
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1.4k
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Anyone have a GO slim list for Affy HG-U133A or HG-U133Av2?
Annotation GO annotate affy PROcess Category cycle Annotation GO annotate affy PROcess
updated 19.2 years ago by ▴ 310 • written 19.2 years ago by ▴ 250
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RMA verse GCRMA, low intensity
cycle cycle
19.1 years ago Matthew Hannah ▴ 940
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1.0k
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Cho et al.'s Expression Dataset in Yeast
Yeast cycle Yeast cycle
updated 19.0 years ago by ▴ 60 • written 19.0 years ago by ▴ 20
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739
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LIMMA
limma cycle limma cycle
18.2 years ago Gordon Smyth 50k
0
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1.6k
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Cell cycle analysis of FACS data
rflowcyt cycle rflowcyt cycle
17.8 years ago Ulrik Stervbo ▴ 80
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821
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about plot rglist
Microarray Cancer limma cycle Microarray Cancer limma cycle
updated 17.6 years ago by ★ 2.2k • written 17.6 years ago by 65k
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966
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Differentially Expressed Genes in Time Series with Replications
Yeast cycle Yeast cycle
17.2 years ago peter robinson ▴ 300
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major alterations to GGdata/GGtools planned
SNP snpMatrix cycle SNP snpMatrix cycle
16.1 years ago Vincent J. Carey, Jr. 6.7k
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1.6k
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qPCR event preview - April 2010
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14.0 years ago qPCR Platform - the reference in real-t… ▴ 170
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2
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1.1k
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how to combine microarray data and phenotype data into a least squares analysis?
Microarray cycle Microarray cycle
updated 15.6 years ago by 65k • written 15.6 years ago by ▴ 40
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1.2k
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how to combine microarray data and phenotype data into a least squares analysis?
Microarray cycle Microarray cycle
15.6 years ago Amy Mikhail ▴ 460
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1.1k
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FW: Request for the assistance to use MEDME
Normalization Organism probe MEDME cycle ASSIGN Normalization Organism probe MEDME cycle
updated 15.4 years ago by ▴ 30 • written 15.4 years ago by ▴ 90
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1.7k
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getGEO problem
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14.2 years ago Sean Davis 21k
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626
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ShortRead QA Feature
graph cycle graph cycle
updated 14.0 years ago by 25k • written 14.0 years ago by ★ 1.5k
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1.0k
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ShortRead Per Cycle Score
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updated 14.0 years ago by 25k • written 14.0 years ago by ★ 1.5k
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999
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sir
Cancer cycle HTqPCR Cancer cycle HTqPCR
updated 13.9 years ago by ▴ 40 • written 13.9 years ago by ★ 2.0k
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4
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1.5k
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Reading in data with HTqPCR
qPCR Cancer cycle HTqPCR qPCR Cancer cycle HTqPCR
13.9 years ago Heidi Dvinge ★ 2.0k
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1
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1.4k
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TLDA data
Clustering Cancer PROcess cycle HTqPCR Clustering Cancer PROcess cycle HTqPCR
updated 13.8 years ago by ★ 2.0k • written 13.9 years ago by ▴ 40
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1.9k
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How to do GO enrichment analysis with GOstats while the gene set with no p values of gene difference expression
Transcription PROcess GOstats cycle Transcription PROcess GOstats cycle
13.7 years ago zhidong yuan ▴ 10
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replicable of *PLGEM*
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13.5 years ago Pavelka, Norman ▴ 70
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1.4k
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paired sample LIMMA
limma cycle limma cycle
updated 12.9 years ago by ▴ 170 • written 12.9 years ago by ▴ 230
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852
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Fwd: Unable to install packages
Microarray Annotation cdf probe cycle Microarray Annotation cdf probe cycle
12.8 years ago James W. MacDonald 65k
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1.2k
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doubt in HTqPCR
Cancer ddCt cycle HTqPCR ASSIGN Cancer ddCt cycle HTqPCR ASSIGN
12.6 years ago Heidi Dvinge ★ 2.0k
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1
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1.3k
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CRAN packages maintained by you
hexbin gpls RBGL impute Icens hopach maanova RLMM CORREP cycle hexbin gpls RBGL Icens
updated 12.5 years ago by ▴ 430 • written 12.4 years ago by ▴ 10
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925
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some basic questions
Microarray Normalization cdf cycle Microarray Normalization cdf cycle
updated 12.4 years ago by 21k • written 12.4 years ago by ★ 13k
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991
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some basic questions
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updated 12.4 years ago by ★ 2.0k • written 12.4 years ago by ▴ 40
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1
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1.9k
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FW: URGENT Help required: Getting this error with GAGE analysis, input files attached
Microarray Annotation Pathways GO Cancer Breast cycle gage Microarray Annotation GO
updated 12.2 years ago by ▴ 200 • written 12.2 years ago by 25k
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2
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1.2k
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Finding coding SNPs with predictCoding
SNP Annotation BSgenome ctc BSgenome cycle genomes SNP Annotation BSgenome ctc BSgenome
updated 12.0 years ago by ★ 1.7k • written 12.0 years ago by ★ 6.8k
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1
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912
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Finding coding SNPs with predictCoding
SNP Annotation BSgenome BSgenome GenomicFeatures cycle genomes SNP Annotation BSgenome
updated 11.9 years ago by ★ 1.7k • written 11.9 years ago by ★ 6.8k
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4
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1.3k
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Accessing old versions of bioc packages
cycle cycle
updated 10.9 years ago by ★ 8.2k • written 10.9 years ago by ★ 1.3k
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3
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1.8k
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pathway ID in KEGG.db
Pathways cycle Pathways cycle
updated 11.8 years ago by ★ 7.2k • written 11.8 years ago by ▴ 230
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reviews for quality control
cycle cycle
updated 11.6 years ago by ★ 1.3k • written 11.6 years ago by ▴ 680
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1
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1.1k
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how does ShortRead function identify score system
cycle cycle
updated 11.6 years ago by 25k • written 11.6 years ago by ★ 2.0k
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0
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851
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Using different file formats with oligo and analysis packages using oligo
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11.3 years ago Hans Thompson ▴ 30
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1.3k
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structure of cfx file for HTqPCR
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11.2 years ago Guest User ★ 13k
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3
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1.9k
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runSPIA() in graphite package
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updated 11.2 years ago by ▴ 20 • written 11.2 years ago by ▴ 420
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975
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Biostrings
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11.2 years ago Hervé Pagès 16k
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1.0k
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Subsetting vcf file by subject
VariantAnnotation Annotation cycle VariantAnnotation VariantAnnotation Annotation cycle
11.0 years ago Valerie Obenchain ★ 6.8k
0
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8
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1.7k
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Filtering BAM files by start position for VariantTools
Coverage Cancer cycle VariantTools Coverage Cancer cycle VariantTools
updated 10.7 years ago by ▴ 250 • written 10.7 years ago by 25k
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757
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New release of triplex package
cycle cycle
10.5 years ago Jiří Hon ▴ 20
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3.1k
views
DESeq2 with GAGE
Pathways cycle gage DESeq2 pathview Pathways cycle gage DESeq2 pathview
10.4 years ago Luo Weijun ★ 1.6k
0
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1
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2.5k
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SPIA error - Error in density.default(pfstmp, bw = sd(pfstmp)/4) : \'bw\' is not positive.
SPIA cycle SPIA cycle
updated 10.4 years ago by ▴ 570 • written 10.4 years ago by ★ 13k
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1.7k
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pathway analysis by SPIA using SPIA package vs graphite package
Pathways SPIA cycle graphite Pathways SPIA cycle graphite
10.3 years ago array chip ▴ 420
50 results • Page 1 of 1
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Comment: Error in champ.load(): The following specified files do not exist by Basti ▴ 760
The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/
Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures by Gordon Smyth 50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma by Gordon Smyth 50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups. by Chris • 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…
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Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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