0
votes
4
replies
3.1k
views
bed file around the TSSs
updated 15.3 years ago by 6.7k • written 15.3 years ago by ▴ 330
4
votes
1
reply
3.0k
views
Gene Ontology: filtering out most informative terms from a list of GO terms
GO graph GO graph
updated 15.3 years ago by ★ 7.2k • written 15.3 years ago by ▴ 30
0
votes
2
replies
1.5k
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omitted rows using getBM
probe biomaRt probe biomaRt
updated 15.3 years ago by ▴ 500 • written 15.3 years ago by ▴ 70
0
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1
reply
1.1k
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Aniket Mishra wants to stay in touch on LinkedIn
Network Network
15.3 years ago Aniket Vatsya ▴ 40
0
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1
reply
1.3k
views
affypara
cdf affy affyPara cdf affy affyPara
updated 15.3 years ago by ★ 6.8k • written 15.3 years ago by ▴ 110
0
votes
0
replies
642
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spillover method in flowCore package
Normalization Normalization
15.3 years ago Stacy_Xu@bd.com ▴ 40
0
votes
0
replies
879
views
Discrepancy in differential expression gene list after intraspotCorrelation
limma limma
15.3 years ago Kachroo, Priyanka ▴ 60
0
votes
1
reply
1.0k
views
Rsamtools hangs reading SOLiD bam files
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 120
0
votes
1
reply
829
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package help
updated 15.3 years ago by ★ 13k • written 15.3 years ago by ▴ 330
0
votes
0
replies
802
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GEOquery question
GEOquery GEOquery
15.3 years ago Sean Davis 21k
0
votes
0
replies
653
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selecting column with beadarray
beadarray beadarray
15.3 years ago Hajar Hassani Lahsinoui ▴ 120
0
votes
3
replies
1.5k
views
RMA XPS Problem on MoGene 1.0 ST
Preprocessing Cancer xps Preprocessing Cancer xps
updated 15.3 years ago by ★ 3.9k • written 15.3 years ago by ▴ 20
0
votes
2
replies
753
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Inconistent behavior with all/any and Rle
Cancer Cancer
updated 15.3 years ago by 25k • written 15.3 years ago by ★ 13k
0
votes
1
reply
669
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Bug/typo in latest GenomicFeatures (rev 50109)
Cancer Cancer
updated 15.3 years ago by 25k • written 15.3 years ago by ★ 13k
0
votes
1
reply
1.8k
views
error fix.by(by.x, x) in Pdinfobuilder package
BiocViews Microarray Annotation Organism biocViews BiocViews BiocViews Microarray Organism
updated 15.3 years ago by ★ 4.3k • written 15.3 years ago by ▴ 60
0
votes
0
replies
887
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help about the GEOquery, Thanks.
GEOquery GEOquery
15.3 years ago Sean Davis 21k
0
votes
1
reply
647
views
Can gene-set data be a data frame for a package in bioconductor
probe probe
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 10
0
votes
1
reply
1.4k
views
Ringo for Nimblegen ChIP-chip data in GEO
Normalization Ringo Normalization Ringo
updated 15.3 years ago by ★ 13k • written 15.3 years ago by ▴ 190
0
votes
4
replies
2.1k
views
Loading data into AgiMicroRna
AgiMicroRna AgiMicroRna
updated 15.3 years ago by ▴ 460 • written 15.3 years ago by ▴ 280
0
votes
0
replies
856
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Fwd: caught segfault in arrayQualityMetrics
arrayQualityMetrics arrayQualityMetrics
15.3 years ago Laurent Gatto 1.6k
0
votes
0
replies
882
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Bioconductor Developer Meeting Europe - 17.-18. 11. 2010
Proteomics Proteomics
15.3 years ago Wolfgang Huber ★ 13k
0
votes
0
replies
1.3k
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replicable of *PLGEM*
plgem cycle plgem cycle
15.3 years ago Pavelka, Norman ▴ 70
0
votes
3
replies
2.2k
views
Data from GEO in Methylumi
methylumi methylumi
updated 15.3 years ago by 21k • written 15.3 years ago by ▴ 90
0
votes
2
replies
2.9k
views
Geoquery problem - GSE file
GEOquery GEOquery
15.3 years ago S T ▴ 90
0
votes
2
replies
2.8k
views
Error: cannot allocate vector of size 2.8 Gb
updated 15.3 years ago by ▴ 110 • written 15.3 years ago by ▴ 20
0
votes
5
replies
2.1k
views
ReadAffy() can't read CEL files from TCGA...
updated 15.3 years ago by ★ 4.2k • written 15.3 years ago by ★ 1.3k
0
votes
1
reply
875
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Error in processing 47 cel files using expresso.
updated 15.3 years ago by ★ 13k • written 15.3 years ago by ▴ 110
0
votes
2
replies
1.6k
views
Cy5: methylated or unmethylated?
methylumi methylumi
updated 15.3 years ago by 21k • written 15.3 years ago by ▴ 720
0
votes
3
replies
1.4k
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Biostrings bug?
BSgenome BSgenome BSgenome BSgenome
15.3 years ago arne.mueller@novartis.com ▴ 200
0
votes
0
replies
915
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Setting up the contrast matrix
15.3 years ago Supriya Munshaw ▴ 40
0
votes
2
replies
2.5k
views
help in downloading some packages.
goTools sigPathway topGO goTools sigPathway topGO
updated 15.3 years ago by ▴ 550 • written 15.3 years ago by ▴ 100
0
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1
reply
1.3k
views
ShortRead for sequencing data quality assessment
Sequencing ShortRead Sequencing ShortRead
updated 15.3 years ago by ★ 6.8k • written 15.3 years ago by ▴ 360
0
votes
3
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1.3k
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Illumina QC using ShortRead
PROcess PROcess
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 30
0
votes
0
replies
953
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Need help in Anova design (contrast.tratment)
limma limma
15.3 years ago Gordon Smyth 53k
0
votes
5
replies
2.6k
views
expresso error
updated 15.3 years ago by 6.7k • written 15.3 years ago by ▴ 110
0
votes
0
replies
1.0k
views
limma makeContrasts
GO Regression limma GO Regression limma
15.3 years ago Sunny Srivastava ▴ 350
0
votes
0
replies
1.2k
views
x-Tile in R
15.3 years ago Samuel Okoye ▴ 20
0
votes
2
replies
1.6k
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memory limit
CGH trigger CGH trigger
updated 15.3 years ago by ★ 13k • written 15.3 years ago by ▴ 100
0
votes
1
reply
1.1k
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limma makeContrasts
updated 15.3 years ago by ▴ 350 • written 15.3 years ago by ▴ 20
0
votes
1
reply
1.4k
views
ShortRead qa() for BAM files?
Coverage Alignment ShortRead Coverage Alignment ShortRead
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 260
0
votes
2
replies
1.4k
views
LIMMA-interaction term
15.3 years ago MassimoAcquaviva@ospedale-gaslini.ge.it ▴ 40
0
votes
3
replies
3.4k
views
Interrupting an R command
updated 15.3 years ago by ★ 6.5k • written 15.3 years ago by ▴ 370
0
votes
3
replies
1.4k
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help - where to start
Sequencing Sequencing
updated 15.3 years ago by 25k • written 15.3 years ago by ▴ 330
0
votes
0
replies
939
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Need help in Anova design (contrast.tratment)
limma limma
15.3 years ago ashwin Vishnuvardhana ▴ 50
0
votes
0
replies
887
views
need help in Contrast. Treatment design
limma limma
15.3 years ago Vishnuvardhana, Ashwin [BSD] - SRF ▴ 30
0
votes
6
replies
2.6k
views
R hanging up on install of BioConductor
updated 15.3 years ago by 6.7k • written 15.3 years ago by ▴ 110
0
votes
0
replies
952
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Course announcement: Statistical Methods for mRNA-Seq and ChIP-seq using Bioconductor
Sequencing Normalization Sequencing Normalization
15.3 years ago Joaquin Dopazo ▴ 10
0
votes
2
replies
1.2k
views
Mapping domains to exons
updated 15.3 years ago by ▴ 910 • written 15.3 years ago by ▴ 270
0
votes
0
replies
1.1k
views
Simpleaffy problems
Annotation probe affy matchprobes simpleaffy AnnotationDbi Annotation probe affy
15.3 years ago James W. MacDonald 68k
0
votes
0
replies
1.5k
views
error in plotKEGGGraph
Pathways GLAD KEGGgraph Pathways GLAD KEGGgraph
15.3 years ago Robert M. Flight ▴ 280
46,717 results • Page 655 of 935
Recent ...
Replies
Comment: Joining different datasets and analyzing using the group-specific condition effe by jason.chai • 0
@mikelove Could I please ask if a similar method would work my set of samples? I have 255 samples which have been generated from 76 subject…
Comment: Clarification on counting in Rsubread (featureCounts) by Luca • 0
Thanks to both of you for your helpful suggestions. The counting was already strand-specific at both the exon and gene levels. I resolved …
Comment: Clarification on counting in Rsubread (featureCounts) by Gordon Smyth 53k
Have you told featureCounts to do strand-specific counting? As pointed out by Frances Turner, you can lose reads if they overlap the gene …
Answer: Clarification on counting in Rsubread (featureCounts) by Frances Turner ▴ 20
You should look at the summary files produced by feature counts. This gives a breakdown of what happened to reads that were not assigned. Y…
Comment: Incosistencies in buildSNNGraph() function by ATpoint ★ 5.0k
Just played with this a bit and I think it comes down to not having a fixed seed before running the leiden thingy. Same goes for PCA and UM…
Votes
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
C: RNA-Seq analysis with Limma/edgeR, time course experiment, aberrant results
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