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TranscriptDb and genomicranges questions
Cancer TranscriptDb Category IRanges GenomicRanges Cancer TranscriptDb Category IRanges
15.4 years ago Hervé Pagès 16k
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1.8k
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append on DNAStringSet produces an empty DNAString as last element
Cancer Cancer
updated 15.4 years ago by 16k • written 15.4 years ago by ▴ 20
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flowStats Plot quadrantGate Filter Result Smooth=FALSE
Cancer flowStats Cancer flowStats
15.4 years ago Chao-Jen Wong ▴ 580
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2
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1.3k
views
Quality control on Human Affymetrix Exon microarrays
GO Cancer probe affyQCReport GO Cancer probe affyQCReport
updated 15.4 years ago by ★ 13k • written 15.4 years ago by ★ 1.9k
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1
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868
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xps: RMA background plot using ROOT graphics
Cancer xps Cancer xps
updated 15.4 years ago by ★ 3.9k • written 15.4 years ago by ★ 1.9k
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817
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Bioconductor Digest, Vol 90, Issue 1
Cancer probe limma Cancer probe limma
15.4 years ago Amos Folarin ▴ 20
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Postdoctoral positions at Harvard
Genetics Cancer Yeast Genetics Cancer Yeast
15.5 years ago Edo Airoldi ▴ 10
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948
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FW: Software engineer/application developer position
Cancer Cancer
15.5 years ago John Zhang ★ 2.9k
0
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1
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1.6k
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write.XStringView/write.XStringSet highly inefficient (solved)
Cancer BSgenome PROcess GLAD BSgenome Cancer BSgenome PROcess GLAD BSgenome
updated 15.5 years ago by ★ 13k • written 15.5 years ago by ▴ 550
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668
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problem using Alternative CDF environments, CdfEnvAffy
Cancer Cancer
15.5 years ago Hervé Pagès 16k
0
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1
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716
views
In limma, how to set quility weight for each spot.
Cancer limma Cancer limma
updated 15.5 years ago by 21k • written 15.5 years ago by ▴ 190
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4
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1.5k
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Performing set ops with an IRanges object loaded with elementMetadata is like a shotgun, pointing at my foot.
Cancer IRanges Cancer IRanges
updated 15.5 years ago by ★ 11k • written 15.5 years ago by ★ 13k
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4
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1.4k
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Limma for GoldenGate Methylation Cancer Panel I
Cancer limma Cancer limma
15.5 years ago Jinyan Huang ▴ 50
0
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2
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1.6k
views
error/problem with biomaRt gene symbol query
Microarray Cancer probe biomaRt ASSIGN Microarray Cancer probe biomaRt ASSIGN
updated 15.5 years ago by ▴ 500 • written 15.5 years ago by ▴ 100
0
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2
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1.6k
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error from rsamtools on 1000 genomes
Cancer HapMap Rsamtools genomes Cancer HapMap Rsamtools genomes
updated 15.5 years ago by 25k • written 15.5 years ago by ▴ 100
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1.9k
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Which package for gene expression correlation analysis
Cancer affy Cancer affy
15.5 years ago Naomi Altman ★ 6.0k
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1.1k
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limma matrix design for biological replicates.
Cancer Breast limma Cancer Breast limma
15.6 years ago Gordon Smyth 53k
0
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930
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limma matrix design for biological replicates.
Cancer Breast limma Cancer Breast limma
15.6 years ago neeraj rana ▴ 100
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2
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1.3k
views
Querying/manipulating JASPAR data
Transcription Cancer Transcription Cancer
updated 15.6 years ago by ★ 1.7k • written 15.6 years ago by ★ 13k
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1
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1.8k
views
How to cluster genes based on their GO term in Arabidopsis?
GO Cancer Prostate goProfiles GO Cancer Prostate goProfiles
updated 15.6 years ago by 68k • written 15.6 years ago by ▴ 280
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0
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1.2k
views
flowStats: lymphGate Issue, plotting the results?
Cancer flowStats Cancer flowStats
15.6 years ago Chao-Jen Wong ▴ 580
0
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3
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2.0k
views
identical output plots for NUSE AND RLE
GO Cancer affyPLM GO Cancer affyPLM
updated 15.6 years ago by ▴ 320 • written 15.6 years ago by ★ 2.0k
0
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1
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1.6k
views
question on makeTranscriptDbFromUCSC
Cancer rtracklayer GenomicRanges PING SANTA Cancer rtracklayer GenomicRanges PING SANTA
updated 15.6 years ago by ▴ 10 • written 15.6 years ago by 16k
0
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1
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1.4k
views
Error message with rmaMicroRna on mouse data in AgiMicroRNA
Cancer probe AgiMicroRna Cancer probe AgiMicroRna
updated 15.6 years ago by ▴ 360 • written 15.6 years ago by ★ 2.0k
0
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10
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2.6k
views
AgiMicroRNA and Extra columns in Agilent Mouse miRNA Microarray Release 12.0 G4471A-021828.
miRNA Microarray Cancer microRNA miRNA Microarray Cancer microRNA
15.6 years ago Neel Aluru ▴ 460
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0
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976
views
Error in cvArray in AgiMicroRNA
Cancer probe Cancer probe
15.6 years ago Richard Friedman ★ 2.0k
0
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0
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979
views
mvaPlots of RMA normalized data in AgiMicroRNA
Cancer AgiMicroRna Cancer AgiMicroRna
15.6 years ago Richard Friedman ★ 2.0k
0
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0
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710
views
Error Message upon filtering in AgiMicroRNA of RMA normalized object.
Cancer Cancer
15.6 years ago Richard Friedman ★ 2.0k
0
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794
views
Biostrings_2.16.5 / IRanges_1.7.1 :: Broken(?) -- DISREGARD
Cancer Biostrings IRanges Cancer Biostrings IRanges
15.6 years ago Steve Lianoglou ★ 13k
0
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749
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Biostrings_2.16.5 / IRanges_1.7.1 :: Broken(?)
Cancer Cancer
15.6 years ago Steve Lianoglou ★ 13k
0
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2
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1.1k
views
Error message with rmaMicroRna on mouse data in AgiMicroRNA
Cancer probe Cancer probe
updated 15.6 years ago by ▴ 360 • written 15.6 years ago by ★ 2.0k
0
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1
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1.8k
views
TLDA data
Clustering Cancer PROcess cycle HTqPCR Clustering Cancer PROcess cycle HTqPCR
updated 15.6 years ago by ★ 2.0k • written 15.6 years ago by ▴ 40
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0
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949
views
AgiMicroRNA and Extra columns in Agilent Mouse miRNA Microarray Release 12.0 G4471A-021828.
miRNA Microarray Cancer microRNA miRNA Microarray Cancer microRNA
15.6 years ago Richard Friedman ★ 2.0k
0
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0
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859
views
DAVIDQuery
Cancer DAVIDQuery Cancer DAVIDQuery
15.6 years ago Day, Roger S ▴ 60
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2
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2.5k
views
GEOquery Meta
Cancer Prostate Cancer Prostate
updated 15.6 years ago by 21k • written 15.6 years ago by ▴ 340
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1
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1.1k
views
Trouble with maQualityPlots
Cancer Cancer
updated 15.6 years ago by 68k • written 15.6 years ago by ▴ 10
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4
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996
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Error Message with RMA normalization in AgiMicroRNA
Cancer Cancer
updated 15.6 years ago by 68k • written 15.6 years ago by ★ 2.0k
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3
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2.8k
views
Reading in data with HTqPCR
Cancer cycle Cancer cycle
updated 15.6 years ago by ▴ 40 • written 15.6 years ago by ★ 2.0k
0
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1
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1.1k
views
error message in cvArray command in AgiMicroRna
Cancer Cancer
updated 15.6 years ago by ▴ 460 • written 15.6 years ago by ★ 2.0k
0
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0
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1.7k
views
Two Bioconductor Job Opportunities in Seattle
Microarray Annotation Cancer cdf Microarray Annotation Cancer cdf
15.6 years ago Martin Morgan 25k
0
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0
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598
views
GCRMA Normalization Differences between Windows and MAC
Cancer Cancer
15.6 years ago Pierre Gestraud ▴ 10
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0
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1.4k
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Experimental design for RNA-Seq
Sequencing qPCR Cancer Sequencing qPCR Cancer
15.6 years ago Jakob Hedegaard ▴ 170
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1
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1.3k
views
Difficulty installing oneChannelGUI in Vista
Cancer affylmGUI oneChannelGUI Cancer affylmGUI oneChannelGUI
updated 15.6 years ago by 68k • written 15.6 years ago by ★ 2.0k
0
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1
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1.4k
views
is database RefSeq achievable from any Bioconductor package
Annotation Cancer biomaRt GenomicFeatures Annotation Cancer biomaRt GenomicFeatures
updated 15.6 years ago by ★ 6.5k • written 15.6 years ago by ★ 13k
0
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4
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1.9k
views
Reading in data with HTqPCR
qPCR Cancer cycle HTqPCR qPCR Cancer cycle HTqPCR
15.6 years ago Heidi Dvinge ★ 2.0k
0
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0
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739
views
Collaborators
Microarray Clustering Cancer Ovarian Microarray Clustering Cancer Ovarian
15.6 years ago Alexandru Floares ▴ 10
0
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0
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793
views
11 more packages available on 64-bit Windows
Cancer Cancer
15.6 years ago Hervé Pagès 16k
0
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1
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1.4k
views
sir
Cancer cycle HTqPCR Cancer cycle HTqPCR
updated 15.6 years ago by ▴ 40 • written 15.7 years ago by ★ 2.0k
0
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0
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1.3k
views
SPIA package problem
Microarray GO Cancer Organism hgu95av2 mgug4122a SPIA Microarray GO Cancer Organism
15.6 years ago January Weiner ▴ 370
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2
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1.1k
views
Error: formal argument "envir" matched by multiple actual arguments
Cancer BSgenome BSgenome Cancer BSgenome BSgenome
updated 15.6 years ago by ▴ 30 • written 15.6 years ago by 25k
1,555 results • Page 14 of 32
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Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
Comment: Guitar R package requires update due to dependency GenomicFeatures by ferran.llobet.cabau ▴ 10
Thank you @seandavi for your feedback. I followed your recommendations and generated a [pull request][1] including the fix for this issue…
Comment: Ensembl plants at annotationHub? by Guido Hooiveld ★ 4.1k
Hope you don't mind I am not Johannes... ;-) Note that you nowadays can generate these yourselves using the `docker` image Johannes made av…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reminder about DiffVar (for that project I ended up using GAMLSS in the end and haven't touched DiffVar since) and the alter…
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A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
Comment: Guitar R package requires update due to dependency GenomicFeatures
A: how to control age and gender effect in expression data using DESeq2
A: how to control age and gender effect in expression data using DESeq2
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