Showing : microarray • reset
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Converting .gpr files to .csv files
Microarray GO convert
updated 11.2 years ago by 68k • written 11.2 years ago by ★ 13k
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Bioinformatics Analyst opportunity at the University of Cambridge/Cancer Research UK (Permanent, full-time)
Microarray Cancer Microarray Cancer
11.3 years ago Suraj Menon ▴ 10
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gpQuality and readGPR errors for Microarrays [arrayQuality Package]
Microarray Microarray
11.3 years ago Guest User ★ 13k
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warning with lmFit command in limma
Microarray limma Microarray limma
updated 11.3 years ago by 53k • written 11.3 years ago by ★ 13k
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1.8k
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Question regarding the use of the snapCGH package to analyze aCGH data obtained from TCGA
Microarray Annotation CGH snapCGH Microarray Annotation CGH snapCGH
updated 11.3 years ago by 21k • written 11.3 years ago by ★ 13k
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3
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finding differential expression pattern between paired columns of data frame.
Sequencing SmallRNA Microarray limma Sequencing SmallRNA Microarray limma
updated 11.3 years ago by 68k • written 11.3 years ago by ▴ 70
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1.4k
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Microarray data normalization
Microarray Normalization Cancer Microarray Normalization Cancer
updated 11.3 years ago by ★ 13k • written 11.3 years ago by ▴ 10
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3
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Is a subset of my arrays from degraded RNA?
Microarray GO Clustering affy affyPLM simpleaffy Microarray GO Clustering affy affyPLM
11.4 years ago Peter Davidsen ▴ 210
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5
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annotating microarray data with mogene10stv1
Microarray Annotation annotate limma ASSIGN Microarray Annotation annotate limma ASSIGN
updated 11.4 years ago by 68k • written 11.4 years ago by ▴ 70
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1.4k
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top table or anova?
Microarray limma Microarray limma
updated 11.4 years ago by 68k • written 11.4 years ago by ▴ 20
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1
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1.1k
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read.maimages
Microarray limma Microarray limma
updated 11.4 years ago by ★ 1.1k • written 11.4 years ago by ★ 13k
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1.2k
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segfault in rqubic
Microarray Cancer rqubic Microarray Cancer rqubic
11.4 years ago Zhang, Jitao David ▴ 120
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3
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2.5k
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ComBat
Microarray rama Microarray rama
updated 11.4 years ago by ▴ 10 • written 11.5 years ago by ▴ 870
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3
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3.7k
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Error in validObject(.Object)
Microarray GO Microarray GO
updated 11.5 years ago by 68k • written 11.5 years ago by ▴ 50
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9.8k
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virtualArray vignette does not work: 'data' must be of a vector type, was 'NULL'
Microarray Annotation Preprocessing hgu133plus2 hgug4112a virtualArray Microarray hgug4112a
11.5 years ago Guest User ★ 13k
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3
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1.2k
views
Installing Workflows for Oligonucleotide arrays
Microarray Microarray
updated 11.5 years ago by ★ 8.2k • written 11.5 years ago by ★ 13k
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1
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3.4k
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annotations for arrays
Microarray Annotation virtualArray Microarray Annotation virtualArray
updated 11.5 years ago by ★ 7.2k • written 11.5 years ago by ★ 13k
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reading CapitalBio corp microarray data with read.myimages
Microarray limma Microarray limma
11.5 years ago Romain Desert ▴ 30
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951
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limma and t-test, third time's a charm
Microarray limma Microarray limma
11.5 years ago Giovanni Bucci ▴ 60
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858
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limma & t-test, third time's a charm
Microarray limma Microarray limma
11.5 years ago Guest User ★ 13k
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3
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2.2k
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ComBat:RT-PCR Data
Microarray Microarray
updated 11.5 years ago by ▴ 20 • written 11.5 years ago by ▴ 870
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2.4k
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t-test vs limma
Microarray limma Microarray limma
11.5 years ago Guest User ★ 13k
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1.2k
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limma all by all
Microarray limma Microarray limma
updated 11.6 years ago by ▴ 380 • written 11.6 years ago by 53k
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1
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1.4k
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segfault in rqubic
Microarray rqubic Microarray rqubic
updated 11.6 years ago by ▴ 120 • written 11.6 years ago by ★ 13k
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1.2k
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RNA-Seq vs. Microarray
RNASeq Microarray Escherichia coli limma DESeq RNASeq Microarray Escherichia coli limma
11.6 years ago Willemijn van Mossevelde ▴ 10
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1.5k
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Gene Expression Meta Analysis
Microarray Microarray
updated 11.6 years ago by ▴ 20 • written 11.6 years ago by ★ 13k
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12
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5.8k
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EdgeR: replicated pools, yes or not?
RNASeq Microarray edgeR RNASeq Microarray edgeR
updated 11.6 years ago by ★ 7.9k • written 11.6 years ago by ★ 13k
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5
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1.9k
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Comparison of murine and human microarray data
Microarray Normalization affy Microarray Normalization affy
updated 11.6 years ago by ▴ 600 • written 11.6 years ago by ▴ 20
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2.0k
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Warnings after gcrma normalisation...
Microarray Normalization gcrma Microarray Normalization gcrma
updated 11.6 years ago by 68k • written 11.6 years ago by ▴ 150
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Bioconductor 2.14 is released
BiocViews aCGH SNP Sequencing RNASeq ChIPSeq miRNA Microarray qPCR Metabolomics Coverage
11.6 years ago Dan Tenenbaum ★ 8.2k
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1.3k
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CNV detection using cn.farms for non-affymetrix arrays (custom oligonucleotide arrays)
Sequencing Microarray probe cn.mops Sequencing Microarray probe cn.mops
updated 11.7 years ago by ▴ 210 • written 11.7 years ago by ★ 13k
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1.9k
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oligo annotation: pd.mogene.2.0.st vs pd.mogene.2.0.st.v1
Microarray Annotation oligo Microarray Annotation oligo
updated 11.7 years ago by 68k • written 11.7 years ago by ▴ 610
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3
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2.6k
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BiocLite eror
Microarray hgu133plus2 Microarray hgu133plus2
updated 11.7 years ago by ★ 8.2k • written 11.7 years ago by ▴ 10
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queries re Voom + Limma for RNA-seq data
Microarray Normalization GO limma Microarray Normalization GO limma
11.7 years ago Gordon Smyth 53k
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2.3k
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Running the GSEA algorithm
Microarray GeneSetEnrichment PGSEA GSEABase GSRI SeqGSEA Microarray GeneSetEnrichment GSRI
updated 11.7 years ago by ★ 13k • written 11.7 years ago by ▴ 70
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queries re Voom + Limma for RNA-seq data
Microarray Microarray
11.7 years ago Guido Hooiveld ★ 4.1k
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2.1k
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Reading MAGE-ML cdf into bioconductor for limma in R v. 3.0.2
Microarray cdf probe makecdfenv RMAGEML ArrayExpress Microarray cdf probe makecdfenv
updated 11.7 years ago by 68k • written 11.7 years ago by ★ 13k
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10
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3.1k
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Microarray data analysis
Microarray Microarray
updated 11.7 years ago by 53k • written 11.7 years ago by ★ 13k
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2
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1.1k
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Data file request
Microarray Microarray
updated 11.7 years ago by ★ 13k • written 11.7 years ago by ▴ 100
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1
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2.5k
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Can I input ordinal variables into a model in Limma?
Microarray limma Microarray limma
updated 11.7 years ago by 53k • written 11.7 years ago by ▴ 130
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1.3k
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problem in making cdf package_makecdfenv
Microarray cdf Microarray cdf
updated 11.7 years ago by 68k • written 11.7 years ago by ▴ 130
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2
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1.2k
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Finding genes with similar trend
Microarray Microarray
updated 11.7 years ago by ★ 13k • written 11.7 years ago by ▴ 150
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1
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2.3k
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Rosetta Resolver-like error-weighted ANOVAs in Bioconductor
Microarray genefilter affy Microarray genefilter affy
updated 11.8 years ago by ★ 7.9k • written 11.8 years ago by ▴ 10
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3
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971
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limma fit interpretation doubt
Microarray limma Microarray limma
updated 11.8 years ago by 68k • written 11.8 years ago by ▴ 20
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2
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2.6k
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Limma design : What is the "best" method to infer biological replicates during differentially expression analysis
Microarray limma PROcess Microarray limma PROcess
updated 11.8 years ago by 53k • written 11.8 years ago by ▴ 20
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2
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1.7k
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Tigre Package question 3
Microarray impute PROcess convert mmgmos puma tigre trigger Microarray impute PROcess
updated 11.8 years ago by ▴ 60 • written 11.8 years ago by ▴ 50
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2.5k
views
Gene Ontology Annotations from Gene Names
Microarray GO Organism PROcess GOstats Microarray GO Organism PROcess GOstats
updated 11.8 years ago by 68k • written 11.8 years ago by ★ 13k
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3.1k
views
liimma and Across Array Normalisation
Microarray Proteomics Microarray Proteomics
updated 11.8 years ago by 53k • written 11.8 years ago by ▴ 130
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3
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1.7k
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Design/Contrast Matrix for Two Channel Microarray
Microarray limma PROcess Microarray limma PROcess
updated 11.8 years ago by 53k • written 11.8 years ago by ★ 13k
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2.4k
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Pathview with minor species
Microarray Annotation GO Bacillus subtilis gage pathview Microarray Annotation GO gage
11.8 years ago Luo Weijun ★ 1.6k
2,319 results • Page 14 of 47
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Replies
Comment: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Comment: problem reading bam files into nucleR by efoss ▴ 10
I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…
Answer: two questions about limma by Gordon Smyth 53k
Answered here: https://support.bioconductor.org/p/16318/
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0
Thank you very much! will take that into consideration
Comment: Large logFC but somewhat high FDR by JKim • 0
Thank you very much for taking the time to answer the question. I really appreciate your insights and comments.
Votes
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
Comment: upstream git branches of bioc-release
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