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Showing :
dnacopy
•
reset
2
votes
4
replies
2.3k
views
Visualizing CopywriteR's segmentation output in IGV
copywriter
dnacopy
updated 8.2 years ago by
t.kuilman
▴ 170 • written 8.2 years ago by
jcarter
• 0
2
votes
3
replies
1.5k
views
Doubt about WL in cn.mops
dnacopy
dnaseq
genomic
cn.mops
cnv
updated 5.8 years ago by
Günter Klambauer
▴ 540 • written 5.8 years ago by
Cased
• 0
2
votes
1
reply
1.5k
views
DNAcopy
DNAcopy
copynumber
DNAcopy
copynumber
updated 12.9 years ago by
Sean Davis
21k • written 12.9 years ago by
Yan Jiao
▴ 140
1
vote
2
replies
1.3k
views
DNAcopy segmentation issue: min.width argument not working?
dnacopy
segmentation
CBS
updated 7.2 years ago by
Venkat Seshan
▴ 30 • written 7.2 years ago by
W. C.
▴ 10
1
vote
1
reply
1.2k
views
Installation of DNAcopy was absolutly done in R2.15?
installation
dnacopy
9.3 years ago
vov-x
• 0
0
votes
0
replies
815
views
Converting Seglist to segments file
Cancer
convert
DNAcopy
snapCGH
cghMCR
Cancer
convert
DNAcopy
snapCGH
cghMCR
16.8 years ago
Daniel Brewer
★ 1.9k
0
votes
4
replies
1.3k
views
Removing libraries or using a particular function
Cancer
DNAcopy
Cancer
DNAcopy
updated 16.8 years ago by
Seth Falcon
★ 7.4k • written 16.8 years ago by
Daniel Brewer
★ 1.9k
0
votes
0
replies
774
views
how to get fewer cut points with DNAcopy or GLAD
SNP
affy
DNAcopy
GLAD
SNP
affy
DNAcopy
GLAD
16.7 years ago
Wittner, Ben
▴ 290
0
votes
1
reply
1.2k
views
DNAcopy plot just one sample
Cancer
DNAcopy
Cancer
DNAcopy
updated 16.7 years ago by
Martin Morgan
25k • written 16.7 years ago by
Daniel Brewer
★ 1.9k
0
votes
1
reply
1.1k
views
DNAcopy package, craeting CNA object
CGH
marray
DNAcopy
CGH
marray
DNAcopy
updated 16.6 years ago by
Sean Davis
21k • written 16.6 years ago by
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
2
replies
1.2k
views
Chromosome 23 and 24 dropped after run snapCGH processCGH
aCGH
Survival
Cancer
annotate
genefilter
affy
DNAcopy
aCGH
GLAD
tilingArray
snapCGH
updated 16.6 years ago by
J-C. Marioni
▴ 40 • written 16.6 years ago by
caiwei@mdanderson.org
▴ 110
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
8
replies
2.0k
views
segmentation aCGH data
Normalization
CGH
probe
limma
DNAcopy
snapCGH
Normalization
CGH
probe
limma
DNAcopy
16.5 years ago
jhs1jjm@leeds.ac.uk
▴ 230
0
votes
3
replies
1.3k
views
CGH DNAcopy plot multiple samples on one plot
Cancer
DNAcopy
Cancer
DNAcopy
updated 16.4 years ago by
Gavin Kelly
▴ 50 • written 16.4 years ago by
Daniel Brewer
★ 1.9k
0
votes
2
replies
1.2k
views
CGH-like workflow for Affymetrix SNP 500k
aCGH
SNP
Cancer
DNAcopy
aCGH
aCGH
SNP
Cancer
DNAcopy
aCGH
updated 15.8 years ago by
Henrik Bengtsson
★ 2.4k • written 15.8 years ago by
Daniel Brewer
★ 1.9k
0
votes
0
replies
945
views
DNAcopy
aCGH
DNAcopy
aCGH
aCGH
DNAcopy
aCGH
14.2 years ago
Anguraj Sadanandam
▴ 10
0
votes
0
replies
1.2k
views
DNAcopy segments.p function / Scoring CNVs
affy
DNAcopy
affy
DNAcopy
15.7 years ago
marco zucchelli
▴ 320
0
votes
2
replies
1.1k
views
Reproducibility of DNAcopy segmentation
DNAcopy
DNAcopy
updated 14.3 years ago by
Sean Davis
21k • written 14.3 years ago by
Ross Patterson
▴ 20
0
votes
0
replies
1.2k
views
cghMCR package - Jianhua Zhang
DNAcopy
cghMCR
DNAcopy
cghMCR
14.3 years ago
Luz G Alonso
▴ 20
0
votes
0
replies
1.1k
views
DNAcopy
aCGH
impute
DNAcopy
aCGH
snapCGH
CGHcall
aCGH
impute
DNAcopy
aCGH
snapCGH
CGHcall
14.2 years ago
Daniel Rico
▴ 110
0
votes
1
reply
897
views
DNAcopy installation error
DNAcopy
DNAcopy
updated 14.2 years ago by
Martin Morgan
25k • written 14.2 years ago by
seth redmond
▴ 10
0
votes
0
replies
836
views
How to get defenitive Amp/del/nochange using DNAcopy package?
graph
DNAcopy
graph
DNAcopy
12.9 years ago
Chiho Kwon
▴ 10
0
votes
0
replies
762
views
[Fwd: Problem with DNAcopy plot function ??]
DNAcopy
DNAcopy
12.9 years ago
nac
▴ 280
0
votes
1
reply
887
views
[Fwd: Problem with DNAcopy plot function ??]
DNAcopy
DNAcopy
updated 12.9 years ago by
Wolfgang Huber
★ 13k • written 12.9 years ago by
nac
▴ 280
0
votes
2
replies
1.3k
views
DNA copy ploting function
probe
DNAcopy
probe
DNAcopy
12.9 years ago
nac
▴ 280
0
votes
1
reply
1.0k
views
DNAcopy segment() Infinite Loop
DNAcopy
DNAcopy
updated 12.8 years ago by
SeshanV@mskcc.org
▴ 40 • written 12.8 years ago by
Dario Strbenac
★ 1.5k
0
votes
1
reply
1.3k
views
cghMCR package:Is it possible to find MCR by not using DNAcopy object?
DNAcopy
cghMCR
DNAcopy
cghMCR
updated 12.6 years ago by
Jianhua Zhang
▴ 20 • written 12.6 years ago by
viritha kaza
▴ 580
0
votes
2
replies
1.6k
views
Tuning segment() in DNAcopy package to get more segments on each chromosome
DNAcopy
UNDO
DNAcopy
UNDO
updated 12.4 years ago by
Sean Davis
21k • written 12.4 years ago by
Qian Liu
▴ 110
0
votes
0
replies
1.0k
views
Help on cghMCR units of gapAllowed
DNAcopy
cghMCR
DNAcopy
cghMCR
12.4 years ago
nac
▴ 280
0
votes
0
replies
968
views
seeking help on cghMCR pleeeease
DNAcopy
cghMCR
DNAcopy
cghMCR
12.4 years ago
nac
▴ 280
0
votes
0
replies
1.0k
views
Fwd: seeking help on cghMCR pleeeease
DNAcopy
cghMCR
DNAcopy
cghMCR
12.3 years ago
nac
▴ 280
0
votes
2
replies
1.1k
views
questions on cghMCR package
DNAcopy
cghMCR
DNAcopy
cghMCR
updated 12.3 years ago by
Martin Morgan
25k • written 12.3 years ago by
nac
▴ 280
0
votes
1
reply
1.3k
views
CNTools error message
CGH
probe
DNAcopy
CGH
probe
DNAcopy
updated 12.2 years ago by
Martin Morgan
25k • written 12.2 years ago by
nac
▴ 280
0
votes
0
replies
1.0k
views
aCGH segmentation with DNAcopy
aCGH
probe
DNAcopy
aCGH
aCGH
probe
DNAcopy
aCGH
12.1 years ago
Emilie Lalonde
▴ 10
0
votes
1
reply
1.1k
views
DNAcopy for CNV in SNP Affy 6.0
DNAcopy
DNAcopy
updated 12.1 years ago by
Vincent J. Carey, Jr.
6.7k • written 12.1 years ago by
Ekta Jain
▴ 370
0
votes
5
replies
1.7k
views
bioconductor on EMR / mapreduce
DNAcopy
DNAcopy
updated 11.6 years ago by
Dan Tenenbaum
★ 8.2k • written 11.6 years ago by
seth redmond
▴ 70
0
votes
1
reply
1.4k
views
Can we use DNAcopy to analyse Copy Number Viaration using next generation sequencing data generated by eigher Ion PGM or Illumina MiSeq
Sequencing
DNAcopy
Sequencing
DNAcopy
updated 11.2 years ago by
Djork Clevert
▴ 210 • written 11.3 years ago by
Guest User
★ 13k
0
votes
3
replies
1.4k
views
Error installing (some) Bioconductor packages on Mac OSX under R-3.0.0?
GUI
impute
DNAcopy
GUI
impute
DNAcopy
updated 11.0 years ago by
Dan Tenenbaum
★ 8.2k • written 11.0 years ago by
Peter Langfelder
★ 3.0k
0
votes
1
reply
1.6k
views
Error in sort(abs(diff(genomdat)))[1:n.keep]
DNAcopy
DNAcopy
updated 10.9 years ago by
SeshanV@mskcc.org
▴ 40 • written 10.9 years ago by
Guest User
★ 13k
0
votes
0
replies
1.2k
views
readPositionalInfo in snapCGH for preparing CNA files for DNAcopy
aCGH
DNAcopy
aCGH
snapCGH
aCGH
DNAcopy
aCGH
snapCGH
10.8 years ago
Guest User
★ 13k
0
votes
0
replies
1.2k
views
CGHCall problems
aCGH
probe
DNAcopy
aCGH
CGHcall
aCGH
probe
DNAcopy
aCGH
CGHcall
10.7 years ago
Guest User
★ 13k
0
votes
0
replies
1.0k
views
DNA Copy CNA function , what do you pass to maploc argument?
DNAcopy
DNAcopy
9.7 years ago
Nikolas Balanis
▴ 30
0
votes
4
replies
1.8k
views
DNACopy Question what is passed to the maploc argument.
DNAcopy
DNAcopy
updated 9.7 years ago by
Valerie Obenchain
★ 6.8k • written 9.7 years ago by
Nikolas Balanis
▴ 30
0
votes
0
replies
1.4k
views
DNAcopy default settings and SNP6.0 arrays
SNP
DNAcopy
SNP6.0
CNV
9.3 years ago
giovanni.dario
• 0
0
votes
1
reply
1.3k
views
"genomdat must be numeric" error form DNACopy package
software error
dnacopy
crlmm
updated 8.8 years ago by
James W. MacDonald
65k • written 8.8 years ago by
perdomos
• 0
0
votes
0
replies
913
views
Get data frame of CNV calls from Seglist object
seglist
snapcgh
dnacopy
8.7 years ago
Cian Murphy
▴ 40
0
votes
1
reply
1.5k
views
CNAnorm ploidy help
CNAnorm
DNAcopy
updated 8.4 years ago by
s.berri
• 0 • written 8.4 years ago by
Venu Pullabhatla
▴ 40
0
votes
2
replies
1.1k
views
could not find function "DNAcopy"
dnacopy
updated 8.2 years ago by
Martin Morgan
25k • written 8.2 years ago by
ckr123
• 0
0
votes
3
replies
1.5k
views
Analysing TCGA Level 3 Copy Number Data Location of markers in the genome
TCGA
Cancer
dnacopy
segmentation
updated 6.8 years ago by
markus.riester
▴ 130 • written 6.8 years ago by
Luisa672
• 0
0
votes
3
replies
1.4k
views
wrong output of DNAcopy::segment() for chr. with empty copy number data
DNAcopy
dnacopy
6.7 years ago
Alexandre Kuhn
▴ 20
50 results • Page
1 of 1
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Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Robert Castelo
★ 3.2k
Hi, your `c2` object storing all the gene sets is probably a `list` object, where element names are the names of the pathways given by MSig…
Comment: Differential peaks that were not identified in diffbind were identified in diseq
by
lonn
• 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph
by
deeenes
▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches
by
Gordon Smyth
50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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