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CGH
•
reset
0
votes
3
replies
2.5k
views
Script to save plots in Pdf format ( DNAcopy)
CGH
PROcess
CGH
PROcess
updated 13.1 years ago by
Thomas Hampton
▴ 750 • written 13.1 years ago by
nac
▴ 280
1
vote
2
replies
2.4k
views
Columns used by read.maimages for Agilent arrays
Annotation
CGH
limma
11.8 years ago • updated 6.6 years ago
Gordon Smyth
50k
0
votes
8
replies
2.1k
views
segmentation aCGH data
Normalization
CGH
probe
limma
DNAcopy
snapCGH
Normalization
CGH
probe
limma
DNAcopy
16.6 years ago
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
7
replies
1.8k
views
segmentation for Affy SNP arrays
SNP
CGH
affy
GLAD
snapCGH
SNP
CGH
affy
GLAD
snapCGH
updated 16.6 years ago by
Rob Scharpf
▴ 250 • written 16.7 years ago by
Yu Chuan Tai
▴ 440
0
votes
9
replies
1.7k
views
gains and losses via mode shifting
Cancer
CGH
Cancer
CGH
15.9 years ago
Oscar Rueda
▴ 60
0
votes
0
replies
1.7k
views
Postdoc positions at the Cancer Research UK Cambridge Research Institute
SNP
Genetics
Pathways
Cancer
CGH
microRNA
SNP
Genetics
Pathways
Cancer
CGH
microRNA
15.6 years ago
Florian Markowetz
▴ 20
0
votes
1
reply
1.7k
views
how to import Agilent CGH custom design xml file into limma
aCGH
CGH
probe
aCGH
snapCGH
aCGH
CGH
probe
aCGH
snapCGH
updated 13.6 years ago by
Sean Davis
21k • written 13.6 years ago by
Jarek Bryk
▴ 110
0
votes
7
replies
1.6k
views
processCGH in snapCGH package
CGH
snapCGH
CGH
snapCGH
updated 16.6 years ago by
Sean Davis
21k • written 16.6 years ago by
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
8
replies
1.6k
views
annotation files for agilent: a bit off-topic
Annotation
CGH
Annotation
CGH
updated 16.8 years ago by
Gaj Stan BIGCAT
▴ 100 • written 16.8 years ago by
Weiwei Shi
★ 1.2k
0
votes
5
replies
1.6k
views
understanding GOstats p-value
Annotation
GO
Cancer
CGH
GOstats
Annotation
GO
Cancer
CGH
GOstats
updated 16.4 years ago by
Charles Berry
▴ 290 • written 16.4 years ago by
Janet Young
▴ 740
0
votes
5
replies
1.6k
views
from BAC name to list of genes in that BAC
CGH
BAC
CGH
BAC
updated 17.3 years ago by
Hilmar Berger
▴ 60 • written 17.3 years ago by
Federico Abascal
▴ 90
5
votes
3
replies
1.6k
views
Classes and methods for working with segmented copy number data
cgh
copynumber
updated 7.1 years ago by
Marcel Ramos
690 • written 7.7 years ago by
Sean Davis
21k
0
votes
2
replies
1.5k
views
Nimblegen CGH ringo to snapCGH
CGH
snapCGH
Ringo
CGH
snapCGH
Ringo
updated 14.1 years ago by
Joern Toedling
▴ 450 • written 14.1 years ago by
Chris Fenton
▴ 80
0
votes
1
reply
1.5k
views
CNV analysis with cghMCR/CNTools
GO
CGH
hgu133a
hgu95av2
GO
CGH
hgu133a
hgu95av2
updated 14.3 years ago by
John Zhang
★ 2.9k • written 14.3 years ago by
Tim Smith
★ 1.1k
0
votes
0
replies
1.5k
views
seeking advice on analyzing CGH data
aCGH
CGH
aCGH
aCGH
CGH
aCGH
13.5 years ago
Paul Shannon
★ 1.1k
0
votes
1
reply
1.5k
views
Question regarding the use of the snapCGH package to analyze aCGH data obtained from TCGA
Microarray
Annotation
CGH
snapCGH
Microarray
Annotation
CGH
snapCGH
updated 9.8 years ago by
Sean Davis
21k • written 9.8 years ago by
Guest User
★ 13k
0
votes
4
replies
1.4k
views
running time of snapCGH processCGH and runDNAcopy
aCGH
Survival
CGH
annotate
genefilter
affy
DNAcopy
aCGH
GLAD
tilingArray
snapCGH
aCGH
updated 16.6 years ago by
jhs1jjm@leeds.ac.uk
▴ 230 • written 16.6 years ago by
caiwei@mdanderson.org
▴ 110
0
votes
1
reply
1.4k
views
Bioconductor 1.4 released
Proteomics
Annotation
Normalization
GO
Cancer
CGH
pamr
gcrma
gpls
affyPLM
webbioc
bim
updated 20.0 years ago by
Wolfgang Huber
★ 13k • written 20.0 years ago by
A.J. Rossini
▴ 810
0
votes
7
replies
1.4k
views
CGH analysis without genome positions
CGH
CGH
updated 14.1 years ago by
Sean Davis
21k • written 14.1 years ago by
adam_pgsql
▴ 70
0
votes
1
reply
1.4k
views
aCGH...'Genomic events'
CGH
CGH
updated 13.7 years ago by
Sean Davis
21k • written 13.7 years ago by
BTIS Department
▴ 10
0
votes
1
reply
1.4k
views
CGHweb and cghFLasso
CGH
CGH
updated 12.6 years ago by
Vincent J. Carey, Jr.
6.7k • written 12.6 years ago by
Chris Fenton
▴ 80
0
votes
0
replies
1.3k
views
Problems with aCGH package
aCGH
Genetics
Cancer
CGH
impute
aCGH
aCGH
Genetics
Cancer
CGH
impute
aCGH
19.9 years ago
grischa tödt
▴ 30
0
votes
1
reply
1.3k
views
A CGH platform question
SNP
Genetics
Coverage
CGH
affy
SNP
Genetics
Coverage
CGH
affy
updated 15.4 years ago by
Henrik Bengtsson
★ 2.4k • written 15.4 years ago by
Johan Lindberg
▴ 70
0
votes
1
reply
1.3k
views
Bioconductor 2.1 is released
SNP
Microarray
SAGE
Annotation
Bayesian
Regression
GUI
CGH
hgu95av2
graph
Rgraphviz
SNP
16.6 years ago
Hervé Pagès
16k
0
votes
0
replies
1.3k
views
Chr Info for array CGH - agilent 60K
CGH
CGH
10.7 years ago
Cian Murphy
▴ 40
0
votes
2
replies
1.3k
views
Calling genes present or absent in CGH data
CGH
limma
CGH
limma
updated 14.3 years ago by
Sean Davis
21k • written 14.3 years ago by
adam_pgsql
▴ 70
0
votes
1
reply
1.3k
views
limma Agilent Normalization
Normalization
CGH
Normalization
CGH
updated 13.9 years ago by
Sean Davis
21k • written 13.9 years ago by
Noemi Andor
▴ 100
0
votes
1
reply
1.3k
views
CNTools error message
CGH
probe
DNAcopy
CGH
probe
DNAcopy
updated 12.3 years ago by
Martin Morgan
25k • written 12.3 years ago by
nac
▴ 280
0
votes
1
reply
1.3k
views
CGH analysis warning messages
Cancer
CGH
snapCGH
Cancer
CGH
snapCGH
updated 16.9 years ago by
Ian Roberts
▴ 70 • written 16.9 years ago by
Daniel Brewer
★ 1.9k
0
votes
0
replies
1.3k
views
JOB: Microarray Bioinformatics Specialist
Microarray
Cancer
CGH
cycle
Microarray
Cancer
CGH
cycle
16.2 years ago
Robert Castelo
★ 3.3k
0
votes
4
replies
1.3k
views
Agilent CGH data
CGH
arrayQuality
marray
CGH
arrayQuality
marray
updated 16.6 years ago by
Sean Davis
21k • written 16.6 years ago by
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
0
replies
1.2k
views
Bioconductor 2.5 is released
Sequencing
miRNA
Microarray
qPCR
Annotation
Network
Bayesian
Regression
CGH
stam
Rintact
14.5 years ago
Patrick Aboyoun
★ 1.6k
0
votes
2
replies
1.2k
views
memory limit
CGH
trigger
CGH
trigger
updated 13.6 years ago by
Steve Lianoglou
★ 13k • written 13.6 years ago by
Noemi Andor
▴ 100
0
votes
3
replies
1.2k
views
[JOB] Bioinformatics positions at NCI
SNP
Cancer
CGH
affy
SNP
Cancer
CGH
affy
updated 18.0 years ago by
E Motakis, Mathematics
▴ 190 • written 18.0 years ago by
Sean Davis
21k
2
votes
3
replies
1.2k
views
read.maimages
Annotation
CGH
limma
Annotation
CGH
limma
updated 6.6 years ago by
Gordon Smyth
50k • written 11.8 years ago by
Assa Yeroslaviz
★ 1.5k
0
votes
5
replies
1.2k
views
gains and losses via mode shifting
CGH
CGH
updated 15.9 years ago by
Sean Davis
21k • written 15.9 years ago by
Benjamin Otto
▴ 830
0
votes
5
replies
1.2k
views
quality assessment and preprocessing for tiling array-based CGH data
CGH
probe
CGH
probe
updated 15.6 years ago by
Sean Davis
21k • written 15.6 years ago by
Leon Yee
▴ 110
0
votes
2
replies
1.2k
views
imputing missing data for 70mer array platform, need advice
aCGH
CGH
multtest
impute
aCGH
oligo
aCGH
CGH
multtest
impute
aCGH
oligo
updated 17.3 years ago by
Sean Davis
21k • written 17.3 years ago by
Betty Gilbert
▴ 50
0
votes
1
reply
1.2k
views
How to use snapCGH with Nimblegen data
CGH
snapCGH
CGH
snapCGH
updated 17.6 years ago by
Steven McKinney
▴ 310 • written 17.6 years ago by
rdesprat
▴ 30
0
votes
1
reply
1.2k
views
DNAcopy package, craeting CNA object
CGH
marray
DNAcopy
CGH
marray
DNAcopy
updated 16.7 years ago by
Sean Davis
21k • written 16.7 years ago by
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
4
replies
1.1k
views
create CNA object in DNAcopy package with agilent data
CGH
CGH
updated 16.7 years ago by
Sean Davis
21k • written 16.7 years ago by
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
2
replies
1.1k
views
How to display chromosome rapresentation ?
CGH
impute
CGH
impute
updated 15.2 years ago by
Sean Davis
21k • written 15.2 years ago by
Giulio Di Giovanni
▴ 540
0
votes
1
reply
1.1k
views
Agilent Human Genome CGH 44K annotation
Annotation
Cancer
CGH
Annotation
Cancer
CGH
updated 15.7 years ago by
Sean Davis
21k • written 15.7 years ago by
Daniel Brewer
★ 1.9k
0
votes
0
replies
1.1k
views
affy u133x3p chip
Microarray
Genetics
GO
Preprocessing
Cancer
CGH
cdf
probe
annotate
genefilter
affy
RBGL
17.1 years ago
Dick Beyer
★ 1.4k
0
votes
0
replies
1.1k
views
aCGH
aCGH
CGH
impute
aCGH
aCGH
CGH
impute
aCGH
17.5 years ago
Sean Davis
21k
0
votes
1
reply
1.1k
views
array CGH - raw data analysis
CGH
CGH
updated 16.2 years ago by
Sean Davis
21k • written 16.2 years ago by
João Fadista
▴ 500
0
votes
0
replies
1.1k
views
Detecting overrepresented genomic loci
aCGH
Clustering
CGH
geneplotter
DNAcopy
aCGH
GLAD
aCGH
Clustering
CGH
geneplotter
aCGH
19.1 years ago
Yi, Andrew
▴ 20
0
votes
0
replies
1.1k
views
Analysing categorical CGH data
Clustering
Cancer
CGH
GLAD
made4
Clustering
Cancer
CGH
GLAD
made4
17.7 years ago
Aedin Culhane
▴ 510
0
votes
2
replies
1.1k
views
cross species CGH Nimblegene arrays
CGH
CGH
updated 16.0 years ago by
Alicia Oshlack
▴ 70 • written 16.0 years ago by
mb23
▴ 30
0
votes
0
replies
1.0k
views
general CGH threshold question
aCGH
CGH
aCGH
GLAD
snapCGH
aCGH
CGH
aCGH
GLAD
snapCGH
14.7 years ago
Wolfgang RAFFELSBERGER
▴ 140
50 results • Page
1 of 1
Recent ...
Replies
Comment: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
by
Dylan.Sheerin
• 0
Thank you very much, Gordon. I'll give voomLmFit a go! And for comparisons between the cohorts I presume duplicateCorrelation with standar…
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
by
Gordon Smyth
50k
Including subjectID in the design matrix always accounts for unbalanced sampling and patient variation but subjects with incomplete records…
Comment: Log-cpm values from limma
by
Gordon Smyth
50k
No, it does not mean that. `voom()` uses the design matrix, including the W covariates, to compute precision weights but not to adjust the …
Comment: Extremely small p-values using Limma for proteomic data
by
Abbey
• 0
This is the code. The only part I changed was adding the contrasts.fit as you suggested. Thanks for taking a look! ``` # Load necessary …
Comment: Extremely small p-values using Limma for proteomic data
by
James W. MacDonald
65k
Probably. I would not expect such large fold changes. But without seeing your code, who knows?
Votes
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
Answer: Extremely small p-values using Limma for proteomic data
Bioconductor 3.19 is Released!
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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