Showing : Cancer • reset
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rtracklayer error?
Cancer rtracklayer Cancer rtracklayer
12.4 years ago • updated 12.3 years ago Janet Young ▴ 740
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DexSeq extracols option
RNASeq Microarray Genetics Annotation Normalization Infrastructure Cancer probe limma
updated 12.4 years ago by ★ 1.9k • written 12.4 years ago by ▴ 40
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Fwd: Conservative results using DEXSeq
Cancer Ovarian DEXSeq DESeq2 Cancer Ovarian DEXSeq DESeq2
updated 12.4 years ago by ★ 13k • written 12.4 years ago by ★ 1.1k
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1.3k
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convert IDs in a data frame?
GO Infrastructure Cancer GO Infrastructure Cancer
updated 12.4 years ago by ★ 7.2k • written 12.4 years ago by 16k
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14
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4.5k
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Trimming of partial adaptor sequences
Sequencing Cancer Biostrings Sequencing Cancer Biostrings
12.4 years ago Taylor, Sean D ▴ 250
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1
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1.8k
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Way to extract population specific genotype from 1000 genome
SNP Cancer SNP Cancer
updated 12.4 years ago by 6.7k • written 12.4 years ago by ▴ 260
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2
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1.5k
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limma for homemade microarray - question on NAs and multiple probes for one gene
Microarray Normalization GO Network Cancer probe limma Microarray Normalization GO probe
updated 12.4 years ago by 53k • written 12.4 years ago by ★ 3.0k
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14
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4.0k
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pd.hugene.2.0.st missing normgene->exon mappings
Cancer probe Cancer probe
updated 12.4 years ago by 68k • written 12.4 years ago by ▴ 910
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1.8k
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Error in clusterProfiler package with function \"setReadable<-\"
GO Cancer Rgraphviz clusterProfiler DOSE GO Cancer Rgraphviz clusterProfiler DOSE
12.4 years ago Martin Morgan 25k
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3
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2.1k
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Merging two data frame
Cancer Cancer
updated 12.4 years ago by ★ 13k • written 12.4 years ago by ▴ 260
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BioC 2013, July 17 (Developer Day) 18-19: 'Early' registration deadline July 1
Cheminformatics Visualization Cancer Ovarian DEXSeq minfi DESeq2 BaseSpaceR epivizr minfi
12.4 years ago Martin Morgan 25k
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3
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2.3k
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Regarding extraction of 3' and 5'UTRs and exonic region of a gene.
Cancer Cancer
updated 12.4 years ago by 16k • written 12.4 years ago by ▴ 60
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Job opening: Staff Scientist – Computational Biology and Bioinformatics – Massachusetts General Hospital & Harvard Medical School
Sequencing Microarray Cancer Sequencing Microarray Cancer
12.4 years ago Wittner, Ben ▴ 290
2
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4
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3.3k
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makePdInfoPackage for Primeview arrays
BiocViews Annotation Cancer Organism cdf probe affy biocViews BiocViews BiocViews Cancer
updated 12.5 years ago by ★ 3.9k • written 12.5 years ago by ▴ 140
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0
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1.2k
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number of variable in svm plot
Cancer Cancer
12.5 years ago Guest User ★ 13k
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1
reply
1.0k
views
why could I only get two different expressed genes by Limma?
Microarray Annotation Cancer Microarray Annotation Cancer
updated 12.5 years ago by ▴ 310 • written 12.5 years ago by ▴ 10
2
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5
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1.7k
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obtaining a complete global alignment via pairwiseAlignment
Alignment GO Cancer BSgenome BSgenome Alignment GO Cancer BSgenome BSgenome
updated 12.5 years ago by 25k • written 12.5 years ago by ★ 13k
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1.3k
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BioC 2013: Talks and Workshops
Visualization Cancer Ovarian DEXSeq DESeq2 BaseSpaceR Visualization Cancer Ovarian DEXSeq
12.5 years ago Martin Morgan 25k
0
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2
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1.3k
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Rat St gene array 2.0
Cancer cdf Cancer cdf
updated 12.5 years ago by ▴ 10 • written 12.5 years ago by ▴ 170
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2
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4.5k
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From location to get the SNP rs ID
SNP Cancer SNPlocs ASSIGN SNP Cancer SNPlocs ASSIGN
updated 12.5 years ago by 16k • written 12.5 years ago by ▴ 970
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1
reply
1.1k
views
Semantics of GenomicRanges gaps()
Cancer GenomicRanges Cancer GenomicRanges
updated 12.5 years ago by ★ 11k • written 12.5 years ago by 16k
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0
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833
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Bioc 2013 Conference in Seattle, July 18-19 -- Updates
Cancer Cancer
12.5 years ago Martin Morgan 25k
0
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0
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1.7k
views
How to analyze Agilent DNA Methylation Microarray Analysis
Clustering Cancer Clustering Cancer
12.5 years ago Guest User ★ 13k
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1.2k
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Analyzing Agilent Human DNA Methylation Microarray
Pathways Cancer Pathways Cancer
12.5 years ago Arpit Jain ▴ 10
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1.1k
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Reminder: Course: Intermediate R / Bioconductor for High-Throughput Sequence Analysis, 28-29 May, Seattle
Cancer Cancer
12.6 years ago Martin Morgan 25k
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1.1k
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Bug when running Gviz::GenomeAxisTrack and highlighting region in axis
Cancer Gviz Cancer Gviz
12.6 years ago Alvaro J. González ▴ 80
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2
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1.3k
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Bug when running Gviz::GenomeAxisTrack and highlighting region in axis
Cancer Gviz Cancer Gviz
updated 12.6 years ago by ★ 1.6k • written 12.6 years ago by ▴ 80
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2.0k
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ComBat using SVA and bladderbatch package
Cancer sva Cancer sva
12.6 years ago Guest User ★ 13k
0
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1
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1.3k
views
edgeR: Using ratios (translational efficiencies) as input
RNASeq GO Cancer limma edgeR RNASeq GO Cancer limma edgeR
updated 12.6 years ago by ▴ 210 • written 12.6 years ago by ▴ 80
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0
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1.9k
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Job opening, KCL Breakthrough Breast Cancer Research Unit
Sequencing Network Cancer Breast Sequencing Network Cancer Breast
12.6 years ago Lawler, Katherine ▴ 40
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0
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1.1k
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Course: Intermediate R / Bioconductor for High-Throughput Sequence Analysis, 28-29 May, Seattle
Cancer Cancer
12.6 years ago Martin Morgan 25k
0
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3
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1.5k
views
Deleting object rows while looping - II
Coverage Alignment Cancer PROcess Coverage Alignment Cancer PROcess
updated 12.6 years ago by ★ 13k • written 12.6 years ago by 16k
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0
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963
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edgeR asimmetry in miRNA experiment
miRNA Cancer edgeR miRNA Cancer edgeR
12.6 years ago Gordon Smyth 53k
0
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1.1k
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edgeR asimmetry in miRNA experiment
Cancer edgeR Cancer edgeR
12.6 years ago alessandro.guffanti@genomnia.com ▴ 330
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0
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856
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Bioc 2013 Conference in Seattle, July 18-19 -- Updates
Cancer Cancer
12.6 years ago Martin Morgan 25k
0
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0
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1.3k
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Affymetrix HTA 2 array analysis
Cancer Breast Cancer Breast
12.6 years ago Steven McKinney ▴ 310
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3
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2.1k
views
error and warning message with blocked samples with Limma
GO Cancer mouse4302 limma GO Cancer mouse4302 limma
updated 12.7 years ago by 53k • written 12.7 years ago by ★ 2.0k
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1.5k
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stringDist ?
Cancer Biostrings Cancer Biostrings
12.7 years ago Hervé Pagès 16k
0
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0
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1.7k
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Biostatistician position in London
Cancer genomes Cancer genomes
12.7 years ago Kathi Zarnack ▴ 110
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5
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5.8k
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Finding mismatches between reads and reference sequence
Infrastructure Cancer BSgenome BSgenome Infrastructure Cancer BSgenome BSgenome
updated 12.7 years ago by ▴ 30 • written 12.7 years ago by 16k
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2
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1.8k
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Limit on number of sequence files for forging a BSgenome
GO Cancer BSgenome BSgenome genomes GO Cancer BSgenome BSgenome genomes
12.7 years ago Hervé Pagès 16k
0
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1.9k
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Bioconductor Digest, Vol 121, Issue 29
miRNA Annotation Normalization Visualization Clustering Infrastructure Cancer BSgenome vsn
12.7 years ago Matthew Thornton ▴ 390
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2
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3.0k
views
[R] Error in setMethod("combine"... was - Error when installing globaltest package
Infrastructure Cancer Biobase tkWidgets globaltest BiocInstaller BiocGenerics Cancer
updated 12.7 years ago by 25k • written 12.7 years ago by ▴ 40
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2
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883
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Estimate how much a factor contributes to the variation
Microarray Cancer Microarray Cancer
updated 12.7 years ago by ★ 4.1k • written 12.7 years ago by ▴ 10
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2
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1.6k
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ChIPpeakAnno query
Microarray Annotation Cancer Prostate annotate affy convert biomaRt ChIPpeakAnno Cancer
updated 12.7 years ago by ▴ 10 • written 12.7 years ago by ★ 4.3k
0
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5
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2.2k
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edgeR for data combined from different studies and/or platforms
Sequencing Cancer edgeR Sequencing Cancer edgeR
updated 12.7 years ago by ★ 7.9k • written 12.7 years ago by ★ 13k
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0
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1.0k
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NCI 60 gene expression status
Cancer Cancer
12.7 years ago Alyaa Mahmoud ▴ 440
0
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0
replies
978
views
BioC2013, July 18-19 (Developer Day July 17), Seattle: Registration Open
Cancer Cancer
12.7 years ago Martin Morgan 25k
0
votes
0
replies
2.5k
views
Bioconductor Digest, Vol 121, Issue 13
RNASeq Microarray Normalization GO Classification Clustering Cancer Mus musculus probe GO
12.7 years ago Matthew Thornton ▴ 390
0
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3
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2.1k
views
QuasiSeq vs DSS
RNASeq Cancer edgeR DSS RNASeq Cancer edgeR DSS
updated 12.7 years ago by ★ 7.9k • written 12.7 years ago by ★ 2.0k
1,555 results • Page 6 of 32
Recent ...
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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