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864
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\"normalize a subset of affy data\" AND \"R help function\"
Normalization
affy
Normalization
affy
14.2 years ago
boczniak767
▴ 740
0
votes
0
replies
883
views
package NEWS, README, and INSTALL files available on web site
GO
PROcess
GO
PROcess
14.2 years ago
Dan Tenenbaum
★ 8.2k
0
votes
0
replies
1.4k
views
TMM and calcNormFactors: Normalization in baySeq to match, edgeR and DESeq (Smith, Hilary A)
Normalization
edgeR
baySeq
DESeq
Normalization
edgeR
baySeq
DESeq
14.2 years ago
Thomas J Hardcastle
▴ 180
0
votes
1
reply
1.1k
views
KEGGSOAP incomplete list.pathways
Pathways
KEGGSOAP
Pathways
KEGGSOAP
updated 14.2 years ago by
Marc Carlson
★ 7.2k • written 14.2 years ago by
Guest User
★ 13k
0
votes
0
replies
1.2k
views
installing gtk for EBImage
EBImage
EBImage
14.2 years ago
Guest User
★ 13k
0
votes
1
reply
771
views
gaoshan
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
wang peter
★ 2.0k
0
votes
1
reply
2.0k
views
finding out which tags are in a bam-file
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Hubert Rehrauer
▴ 100
0
votes
1
reply
1.8k
views
RE : RE : rsamtools installation
Cancer
Biostrings
IRanges
Rsamtools
BiocInstaller
Cancer
Biostrings
IRanges
Rsamtools
updated 14.2 years ago by
Wolfgang RAFFELSBERGER
▴ 140 • written 14.2 years ago by
Martin Morgan
25k
0
votes
2
replies
1.3k
views
Problem installing KEGGSOAP
KEGGSOAP
KEGGSOAP
updated 14.2 years ago by
Dan Tenenbaum
★ 8.2k • written 14.2 years ago by
Paolo Sonego
▴ 140
0
votes
1
reply
1.1k
views
Addition of Orangutan genome to BSgenomes
Genetics
BSgenome
BSgenome
genomes
Genetics
BSgenome
BSgenome
genomes
updated 14.2 years ago by
Valerie Obenchain
★ 6.8k • written 14.2 years ago by
Colm Nestor
▴ 10
0
votes
0
replies
915
views
\"normalize a subset of affy data\" AND \"R help function\"
affy
affy
14.2 years ago
Guest User
★ 13k
0
votes
1
reply
803
views
package Genominator with ShortRead-annotation question
Annotation
Annotation
updated 14.2 years ago by
Kasper Daniel Hansen
★ 6.5k • written 14.2 years ago by
Guest User
★ 13k
0
votes
1
reply
1.3k
views
permutation loop
PROcess
PROcess
updated 14.2 years ago by
Achilleas Pitsillides
▴ 170 • written 14.2 years ago by
Kripa R
▴ 180
0
votes
0
replies
1.3k
views
diagnosing problems with processing microarray data using lumi package
Microarray
probe
PROcess
convert
lumi
Microarray
probe
PROcess
convert
lumi
14.2 years ago
Juliet Hannah
▴ 360
0
votes
5
replies
1.4k
views
subsetting IntegerList by list names
updated 14.2 years ago by
Hervé Pagès
16k • written 14.2 years ago by
Manuela Hummel
▴ 10
0
votes
2
replies
1.5k
views
HTSanalyzeR GSEA Error
HTSanalyzeR
GSCA
HTSanalyzeR
GSCA
updated 14.2 years ago by
Xin Wang
▴ 10 • written 14.2 years ago by
Dario Strbenac
★ 1.6k
0
votes
2
replies
614
views
Using proportions...
updated 14.2 years ago by
Wolfgang Huber
★ 13k • written 14.2 years ago by
Jim Silverton
▴ 20
0
votes
2
replies
1.7k
views
Rgraphviz produces segmentation fault when attempting to plot Bayesian Belief Networks
Bayesian
graph
Bayesian
graph
updated 14.2 years ago by
Sean Davis
21k • written 14.2 years ago by
Royce Francis
▴ 20
0
votes
1
reply
1.1k
views
possible bug in ShortRead qa/ppnCount
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Janet Young
▴ 740
0
votes
0
replies
2.6k
views
bayseq and edgeR for multi groups comparisons
edgeR
baySeq
edgeR
baySeq
14.2 years ago
Gordon Smyth
53k
0
votes
4
replies
1.7k
views
problem using affxparser on MacOSX
affxparser
affyILM
affxparser
affyILM
updated 14.2 years ago by
Noah Dowell
▴ 410 • written 14.2 years ago by
Fabrice Berger
▴ 20
0
votes
1
reply
2.0k
views
PhD position available in Innsbruck, Austria
Transcription
Microarray
Cancer
Leukemia
Transcription
Microarray
Cancer
Leukemia
14.2 years ago
Johannes Rainer
▴ 80
0
votes
3
replies
1.3k
views
baySeq plotPosteriors or plotMA question
14.2 years ago
Smith, Hilary A
▴ 40
0
votes
11
replies
3.7k
views
GSVA: using Entrez ID's as identifiers
probe
GSVA
probe
GSVA
updated 14.2 years ago by
Robert Castelo
★ 3.4k • written 14.2 years ago by
Wendy Qiao
▴ 360
0
votes
1
reply
1.2k
views
Possible bug in SNPchip
Proteomics
SNPchip
Proteomics
SNPchip
updated 14.2 years ago by
Rob Scharpf
▴ 250 • written 14.2 years ago by
Francesco Mancuso
▴ 110
0
votes
2
replies
1.5k
views
readCelFile function in Starr is crashing R
Starr
Starr
updated 14.2 years ago by
Kasper Daniel Hansen
★ 6.5k • written 14.2 years ago by
Guest User
★ 13k
0
votes
3
replies
1.5k
views
Augmenting metadata values in GRanges object
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Fahim Md
▴ 250
0
votes
1
reply
1.2k
views
Adding Multiple quadrantGates of Same Channels to workFlow (flowCore)
14.2 years ago
Aric Gregson
▴ 270
3
votes
1
reply
4.3k
views
convert GeneSetCollection to a list
convert
convert
updated 14.2 years ago by
Robert Castelo
★ 3.4k • written 14.2 years ago by
Wendy Qiao
▴ 360
0
votes
1
reply
1.5k
views
Two channel data vs. one colour data for PCA, heatmaps and clustering
14.2 years ago
john herbert
▴ 560
0
votes
2
replies
2.1k
views
Tuning segment() in DNAcopy package to get more segments on each chromosome
DNAcopy
UNDO
DNAcopy
UNDO
updated 14.2 years ago by
Sean Davis
21k • written 14.2 years ago by
Qian Liu
▴ 110
0
votes
3
replies
2.0k
views
Two channel data vs. one colour data for PCA, heatmaps and clustering
limma
limma
updated 14.2 years ago by
Mayer, Claus-Dieter
▴ 120 • written 14.2 years ago by
boczniak767
▴ 740
0
votes
0
replies
906
views
Genentech Summer Internship Program 2012
14.2 years ago
Hsin-Ju Hsieh
▴ 10
0
votes
4
replies
10k
views
Error while building ExpressionSet from scratch....
ExperimentData
LMGene
ExperimentData
LMGene
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Bas Jansen
▴ 150
0
votes
0
replies
1.0k
views
[limma] Unreliable spots - omitting in avereps
probe
limma
probe
limma
14.2 years ago
boczniak767
▴ 740
0
votes
3
replies
3.4k
views
EdgeR: Using estimateCommondisp for housekeeping genes
edgeR
edgeR
updated 14.2 years ago by
Mark Robinson
▴ 880 • written 14.2 years ago by
Tonya Mariko Brunetti
▴ 10
0
votes
0
replies
762
views
try to install bioc v2.9 but always get v2.8 in centos 5.1
BiocInstaller
BiocInstaller
14.2 years ago
Dan Tenenbaum
★ 8.2k
0
votes
2
replies
1.2k
views
Sudden Issue with add for lymphGate in flowCore
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Aric Gregson
▴ 270
0
votes
5
replies
1.2k
views
try to install bioc v2.9 but always get v2.8 in centos 5.1
updated 14.2 years ago by
Dan Tenenbaum
▴ 60 • written 14.2 years ago by
Guest User
★ 13k
0
votes
3
replies
2.3k
views
compilation error for rtracklayer
rtracklayer
rtracklayer
updated 14.2 years ago by
Michael Lawrence
★ 11k • written 14.2 years ago by
rcaloger
▴ 500
0
votes
1
reply
854
views
design matrix limma
updated 14.2 years ago by
Sean Davis
21k • written 14.2 years ago by
Reema Singh
▴ 570
0
votes
2
replies
984
views
permutate data matrix
14.2 years ago
Kripa R
▴ 180
0
votes
4
replies
2.0k
views
rsamtools installation
Rsamtools
Rsamtools
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Guest User
★ 13k
0
votes
0
replies
778
views
significant test when number of sample are only two???
14.2 years ago
neeraj rana
▴ 100
0
votes
5
replies
2.8k
views
Problems installing sva and bladderbatch
sva
sva
updated 14.2 years ago by
Vincent J. Carey, Jr.
6.7k • written 14.2 years ago by
James Wagner
▴ 30
0
votes
1
reply
2.1k
views
DEseq for sample clustering
Visualization
Clustering
DESeq
Visualization
Clustering
DESeq
updated 14.2 years ago by
Wolfgang Huber
★ 13k • written 14.2 years ago by
Guest User
★ 13k
0
votes
1
reply
1.8k
views
DESeq - read counts
convert
convert
updated 14.2 years ago by
Wolfgang Huber
★ 13k • written 14.2 years ago by
Avinash S
▴ 10
0
votes
18
replies
4.7k
views
extract introns
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
Yating Cheng
▴ 90
0
votes
3
replies
1.5k
views
[ChIPpeakAnno] - What's the "annotatePeakInBatch" function expected running time ?
AnnotationData
AnnotationData
updated 14.2 years ago by
Halian Vilela
▴ 50 • written 14.2 years ago by
Julie Zhu
★ 4.3k
0
votes
0
replies
1.4k
views
making valid model matrix for using SNM package
snm
snm
14.2 years ago
Wendy Qiao
▴ 360
46,716 results • Page
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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
▴ 10
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…
Answer: Incosistencies in buildSNNGraph() function
by
Aaron Lun
★ 29k
The most obvious thing that comes to mind is the RNG seed. `cluster_leiden()` does some random number generation, somewhere deep in the **i…
Comment: Opportunity to host EuroBioC2026 Preconference workshops!
by
TikTsokaas33ocissalpc
• 0
Thank you for sharing the EuroBioC2026 workshop opportunity. I m interested in hosting a hands on session teaching reproducible data analys…
Votes
Answer: Clarification on counting in Rsubread (featureCounts)
C: RNA-Seq analysis with Limma/edgeR, time course experiment, aberrant results
C: RNA-Seq analysis with Limma/edgeR, time course experiment, aberrant results
A: Conversion from counts to FPKM
Answer: Incosistencies in buildSNNGraph() function
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