Showing : DNAcopy • reset
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DNAcopy segment function not reproducible even when setting seed
DNAcopy
8 months ago BID • 0
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0
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841
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NAs in tabular output from DNAcopy
Bioconductor DNAcopy
15 months ago NewtoBioconductor • 0
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614
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do DNAcopy do copy number segmentation need separate between tumor samples and mormal samples
DNAcopy
3.0 years ago xingyu • 0
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1
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2.5k
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BiocManager::install("DNAcopy") failed to install in r
DNAcopy R
updated 3.1 years ago by ★ 6.6k • written 3.1 years ago by • 0
0
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11
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1.8k
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Create `Copy Number Array' Data Object error
DNAcopy
4.0 years ago El • 0
0
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3
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1.9k
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"genomdat must be numeric"error in DNAcopy Package (Solved)
DNAcopy Varscan
updated 4.0 years ago by • 0 • written 6.8 years ago by • 0
0
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0
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747
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don't get an output of wigtoRangedData's function HMMcopy Package for detect CNV
HMMcopy DNAcopy
4.0 years ago El • 0
2
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3
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1.7k
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Doubt about WL in cn.mops
dnacopy dnaseq genomic cn.mops cnv
updated 6.4 years ago by ▴ 540 • written 6.4 years ago by • 0
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1
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2.8k
views
change plot title in DNAcopy multiple plot.type="s"
DNAcopy
updated 7.1 years ago by ▴ 690 • written 7.1 years ago by ▴ 60
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0
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926
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plot multiple chromosomes from plot.type="c" to PDF files automatically in RStudio (RMD document)
dnacopy
7.1 years ago Stephane Plaisance | VIB | ▴ 60
0
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3
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1.7k
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wrong output of DNAcopy::segment() for chr. with empty copy number data
DNAcopy dnacopy
7.3 years ago Alexandre Kuhn ▴ 20
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3
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1.8k
views
Analysing TCGA Level 3 Copy Number Data Location of markers in the genome
TCGA Cancer dnacopy segmentation
updated 7.4 years ago by ▴ 130 • written 7.4 years ago by • 0
1
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2
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1.5k
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DNAcopy segmentation issue: min.width argument not working?
dnacopy segmentation CBS
updated 7.8 years ago by ▴ 30 • written 7.8 years ago by ▴ 10
2
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4
replies
2.6k
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Visualizing CopywriteR's segmentation output in IGV
copywriter dnacopy
updated 8.8 years ago by ▴ 170 • written 8.8 years ago by • 0
0
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2
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1.3k
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could not find function "DNAcopy"
dnacopy
updated 8.8 years ago by 25k • written 8.8 years ago by • 0
0
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1
reply
1.7k
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CNAnorm ploidy help
CNAnorm DNAcopy
updated 9.0 years ago by • 0 • written 9.0 years ago by ▴ 40
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0
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1.0k
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Get data frame of CNV calls from Seglist object
seglist snapcgh dnacopy
9.3 years ago Cian Murphy ▴ 40
0
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1
reply
1.5k
views
"genomdat must be numeric" error form DNACopy package
software error dnacopy crlmm
updated 9.4 years ago by 67k • written 9.5 years ago by • 0
0
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0
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1.5k
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DNAcopy default settings and SNP6.0 arrays
SNP DNAcopy SNP6.0 CNV
9.9 years ago giovanni.dario • 0
1
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1
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1.4k
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Installation of DNAcopy was absolutly done in R2.15?
installation dnacopy
10.0 years ago vov-x • 0
0
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4
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2.0k
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DNACopy Question what is passed to the maploc argument.
DNAcopy DNAcopy
updated 10.4 years ago by ★ 6.8k • written 10.4 years ago by ▴ 30
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0
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1.1k
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DNA Copy CNA function , what do you pass to maploc argument?
DNAcopy DNAcopy
10.4 years ago Nikolas Balanis ▴ 30
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3
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3.9k
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Error installing impute package
GUI impute DNAcopy GUI impute DNAcopy
updated 10.5 years ago by ★ 8.2k • written 10.5 years ago by ▴ 80
0
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0
replies
1.3k
views
CGHCall problems
aCGH probe DNAcopy aCGH CGHcall aCGH probe DNAcopy aCGH CGHcall
11.3 years ago Guest User ★ 13k
0
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0
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1.3k
views
readPositionalInfo in snapCGH for preparing CNA files for DNAcopy
aCGH DNAcopy aCGH snapCGH aCGH DNAcopy aCGH snapCGH
11.4 years ago Guest User ★ 13k
0
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1
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1.8k
views
Error in sort(abs(diff(genomdat)))[1:n.keep]
DNAcopy DNAcopy
updated 11.5 years ago by ▴ 40 • written 11.5 years ago by ★ 13k
0
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3
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1.5k
views
Error installing (some) Bioconductor packages on Mac OSX under R-3.0.0?
GUI impute DNAcopy GUI impute DNAcopy
updated 11.7 years ago by ★ 8.2k • written 11.7 years ago by ★ 3.0k
0
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1
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1.5k
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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 11.9 years ago by ▴ 210 • written 11.9 years ago by ★ 13k
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5
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1.9k
views
bioconductor on EMR / mapreduce
DNAcopy DNAcopy
updated 12.2 years ago by ★ 8.2k • written 12.2 years ago by ▴ 70
0
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1
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1.7k
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DNAcopy for CNV in SNP Affy 6.0
SNP affy DNAcopy SNP affy DNAcopy
12.7 years ago Ekta Jain ▴ 370
0
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1
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1.3k
views
DNAcopy for CNV in SNP Affy 6.0
DNAcopy DNAcopy
updated 12.7 years ago by 6.7k • written 12.7 years ago by ▴ 370
0
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0
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1.2k
views
aCGH segmentation with DNAcopy
aCGH probe DNAcopy aCGH aCGH probe DNAcopy aCGH
12.8 years ago Emilie Lalonde ▴ 10
0
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1
reply
1.4k
views
CNTools error message
CGH probe DNAcopy CGH probe DNAcopy
updated 12.9 years ago by 25k • written 12.9 years ago by ▴ 280
0
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2
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1.3k
views
questions on cghMCR package
DNAcopy cghMCR DNAcopy cghMCR
updated 12.9 years ago by 25k • written 12.9 years ago by ▴ 280
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0
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1.1k
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Fwd: seeking help on cghMCR pleeeease
DNAcopy cghMCR DNAcopy cghMCR
13.0 years ago nac ▴ 280
0
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0
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1.1k
views
seeking help on cghMCR pleeeease
DNAcopy cghMCR DNAcopy cghMCR
13.0 years ago nac ▴ 280
0
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0
replies
1.1k
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Help on cghMCR units of gapAllowed
DNAcopy cghMCR DNAcopy cghMCR
13.0 years ago nac ▴ 280
0
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2
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1.8k
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Tuning segment() in DNAcopy package to get more segments on each chromosome
DNAcopy UNDO DNAcopy UNDO
updated 13.1 years ago by 21k • written 13.1 years ago by ▴ 110
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0
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1.4k
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cghMCR package:Is it possible to find MCR by not usingDNAcopy object?
PROcess DNAcopy cghMCR PROcess DNAcopy cghMCR
13.2 years ago viritha kaza ▴ 580
0
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1
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1.5k
views
cghMCR package:Is it possible to find MCR by not using DNAcopy object?
DNAcopy cghMCR DNAcopy cghMCR
updated 13.2 years ago by ▴ 20 • written 13.2 years ago by ▴ 580
0
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1
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1.2k
views
DNAcopy segment() Infinite Loop
DNAcopy DNAcopy
updated 13.4 years ago by ▴ 40 • written 13.5 years ago by ★ 1.5k
2
votes
1
reply
1.7k
views
DNAcopy
DNAcopy copynumber DNAcopy copynumber
updated 13.5 years ago by 21k • written 13.5 years ago by ▴ 140
0
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2
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1.5k
views
DNA copy ploting function
probe DNAcopy probe DNAcopy
13.5 years ago nac ▴ 280
0
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1
reply
1.0k
views
[Fwd: Problem with DNAcopy plot function ??]
DNAcopy DNAcopy
updated 13.6 years ago by ★ 13k • written 13.6 years ago by ▴ 280
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0
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870
views
[Fwd: Problem with DNAcopy plot function ??]
DNAcopy DNAcopy
13.6 years ago nac ▴ 280
0
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0
replies
941
views
How to get defenitive Amp/del/nochange using DNAcopy package?
graph DNAcopy graph DNAcopy
13.6 years ago Chiho Kwon ▴ 10
0
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1
reply
1.1k
views
DNAcopy installation error
DNAcopy DNAcopy
updated 14.8 years ago by 25k • written 14.8 years ago by ▴ 10
0
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0
replies
1.2k
views
DNAcopy
aCGH impute DNAcopy aCGH snapCGH CGHcall aCGH impute DNAcopy aCGH snapCGH CGHcall
14.8 years ago Daniel Rico ▴ 110
0
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0
replies
1.1k
views
DNAcopy
aCGH DNAcopy aCGH aCGH DNAcopy aCGH
14.9 years ago Anguraj Sadanandam ▴ 10
0
votes
2
replies
1.2k
views
Reproducibility of DNAcopy segmentation
DNAcopy DNAcopy
updated 14.9 years ago by 21k • written 14.9 years ago by ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k
You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…
Comment: contrast matrix design for a continuous variable by dtzhu337 • 0
Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…
Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k
Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …
Comment: fail to use addPerROIQC in Rmd by liu.n • 0
That's odd. So it can run successfully within markdown but would be failed when knitting?
Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0
> dim(spe) [1] 19962 425
Votes
Answer: contrast matrix design for a continuous variable
A: What's the difference between p.adjust and qvalue?
Answer: DESeq2- merging technical vs biological replicates
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
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