Showing : DNAcopy • reset
0
votes
0
replies
268
views
DNAcopy segment function not reproducible even when setting seed
DNAcopy
9 months ago BID • 0
0
votes
0
replies
861
views
NAs in tabular output from DNAcopy
Bioconductor DNAcopy
16 months ago NewtoBioconductor • 0
0
votes
0
replies
629
views
do DNAcopy do copy number segmentation need separate between tumor samples and mormal samples
DNAcopy
3.0 years ago xingyu • 0
0
votes
1
reply
2.5k
views
BiocManager::install("DNAcopy") failed to install in r
DNAcopy R
updated 3.2 years ago by ★ 6.6k • written 3.2 years ago by • 0
0
votes
11
replies
1.8k
views
Create `Copy Number Array' Data Object error
DNAcopy
4.1 years ago El • 0
0
votes
3
replies
1.9k
views
"genomdat must be numeric"error in DNAcopy Package (Solved)
DNAcopy Varscan
updated 4.1 years ago by • 0 • written 6.9 years ago by • 0
0
votes
0
replies
761
views
don't get an output of wigtoRangedData's function HMMcopy Package for detect CNV
HMMcopy DNAcopy
4.1 years ago El • 0
2
votes
3
replies
1.7k
views
Doubt about WL in cn.mops
dnacopy dnaseq genomic cn.mops cnv
updated 6.5 years ago by ▴ 540 • written 6.5 years ago by • 0
0
votes
1
reply
2.8k
views
change plot title in DNAcopy multiple plot.type="s"
DNAcopy
updated 7.2 years ago by ▴ 690 • written 7.2 years ago by ▴ 60
0
votes
0
replies
943
views
plot multiple chromosomes from plot.type="c" to PDF files automatically in RStudio (RMD document)
dnacopy
7.2 years ago Stephane Plaisance | VIB | ▴ 60
0
votes
3
replies
1.7k
views
wrong output of DNAcopy::segment() for chr. with empty copy number data
DNAcopy dnacopy
7.4 years ago Alexandre Kuhn ▴ 20
0
votes
3
replies
1.8k
views
Analysing TCGA Level 3 Copy Number Data Location of markers in the genome
TCGA Cancer dnacopy segmentation
updated 7.5 years ago by ▴ 130 • written 7.5 years ago by • 0
1
vote
2
replies
1.5k
views
DNAcopy segmentation issue: min.width argument not working?
dnacopy segmentation CBS
updated 7.9 years ago by ▴ 30 • written 7.9 years ago by ▴ 10
2
votes
4
replies
2.6k
views
Visualizing CopywriteR's segmentation output in IGV
copywriter dnacopy
updated 8.9 years ago by ▴ 170 • written 8.9 years ago by • 0
0
votes
2
replies
1.3k
views
could not find function "DNAcopy"
dnacopy
updated 8.9 years ago by 25k • written 8.9 years ago by • 0
0
votes
1
reply
1.7k
views
CNAnorm ploidy help
CNAnorm DNAcopy
updated 9.1 years ago by • 0 • written 9.1 years ago by ▴ 40
0
votes
0
replies
1.0k
views
Get data frame of CNV calls from Seglist object
seglist snapcgh dnacopy
9.4 years ago Cian Murphy ▴ 40
0
votes
1
reply
1.5k
views
"genomdat must be numeric" error form DNACopy package
software error dnacopy crlmm
updated 9.5 years ago by 67k • written 9.6 years ago by • 0
0
votes
0
replies
1.5k
views
DNAcopy default settings and SNP6.0 arrays
SNP DNAcopy SNP6.0 CNV
10.0 years ago giovanni.dario • 0
1
vote
1
reply
1.4k
views
Installation of DNAcopy was absolutly done in R2.15?
installation dnacopy
10.0 years ago vov-x • 0
0
votes
4
replies
2.0k
views
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
0
votes
0
replies
1.1k
views
DNA Copy CNA function , what do you pass to maploc argument?
DNAcopy DNAcopy
10.4 years ago Nikolas Balanis ▴ 30
0
votes
3
replies
3.9k
views
Error installing impute package
GUI impute DNAcopy GUI impute DNAcopy
updated 10.6 years ago by ★ 8.2k • written 10.6 years ago by ▴ 80
0
votes
0
replies
1.3k
views
CGHCall problems
aCGH probe DNAcopy aCGH CGHcall aCGH probe DNAcopy aCGH CGHcall
11.4 years ago Guest User ★ 13k
0
votes
0
replies
1.3k
views
readPositionalInfo in snapCGH for preparing CNA files for DNAcopy
aCGH DNAcopy aCGH snapCGH aCGH DNAcopy aCGH snapCGH
11.5 years ago Guest User ★ 13k
0
votes
1
reply
1.8k
views
Error in sort(abs(diff(genomdat)))[1:n.keep]
DNAcopy DNAcopy
updated 11.6 years ago by ▴ 40 • written 11.6 years ago by ★ 13k
0
votes
3
replies
1.6k
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
votes
1
reply
1.5k
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 12.0 years ago by ▴ 210 • written 12.0 years ago by ★ 13k
0
votes
5
replies
1.9k
views
bioconductor on EMR / mapreduce
DNAcopy DNAcopy
updated 12.3 years ago by ★ 8.2k • written 12.3 years ago by ▴ 70
0
votes
1
reply
1.7k
views
DNAcopy for CNV in SNP Affy 6.0
SNP affy DNAcopy SNP affy DNAcopy
12.8 years ago Ekta Jain ▴ 370
0
votes
1
reply
1.3k
views
DNAcopy for CNV in SNP Affy 6.0
DNAcopy DNAcopy
updated 12.8 years ago by 6.7k • written 12.8 years ago by ▴ 370
0
votes
0
replies
1.2k
views
aCGH segmentation with DNAcopy
aCGH probe DNAcopy aCGH aCGH probe DNAcopy aCGH
12.8 years ago Emilie Lalonde ▴ 10
0
votes
1
reply
1.5k
views
CNTools error message
CGH probe DNAcopy CGH probe DNAcopy
updated 13.0 years ago by 25k • written 13.0 years ago by ▴ 280
0
votes
2
replies
1.3k
views
questions on cghMCR package
DNAcopy cghMCR DNAcopy cghMCR
updated 13.0 years ago by 25k • written 13.0 years ago by ▴ 280
0
votes
0
replies
1.1k
views
Fwd: seeking help on cghMCR pleeeease
DNAcopy cghMCR DNAcopy cghMCR
13.0 years ago nac ▴ 280
0
votes
0
replies
1.1k
views
seeking help on cghMCR pleeeease
DNAcopy cghMCR DNAcopy cghMCR
13.1 years ago nac ▴ 280
0
votes
0
replies
1.2k
views
Help on cghMCR units of gapAllowed
DNAcopy cghMCR DNAcopy cghMCR
13.1 years ago nac ▴ 280
0
votes
2
replies
1.8k
views
Tuning segment() in DNAcopy package to get more segments on each chromosome
DNAcopy UNDO DNAcopy UNDO
updated 13.2 years ago by 21k • written 13.2 years ago by ▴ 110
0
votes
0
replies
1.4k
views
cghMCR package:Is it possible to find MCR by not usingDNAcopy object?
PROcess DNAcopy cghMCR PROcess DNAcopy cghMCR
13.3 years ago viritha kaza ▴ 580
0
votes
1
reply
1.5k
views
cghMCR package:Is it possible to find MCR by not using DNAcopy object?
DNAcopy cghMCR DNAcopy cghMCR
updated 13.3 years ago by ▴ 20 • written 13.3 years ago by ▴ 580
0
votes
1
reply
1.2k
views
DNAcopy segment() Infinite Loop
DNAcopy DNAcopy
updated 13.5 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 13.6 years ago by 21k • written 13.6 years ago by ▴ 140
0
votes
2
replies
1.5k
views
DNA copy ploting function
probe DNAcopy probe DNAcopy
13.6 years ago nac ▴ 280
0
votes
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
0
votes
0
replies
882
views
[Fwd: Problem with DNAcopy plot function ??]
DNAcopy DNAcopy
13.6 years ago nac ▴ 280
0
votes
0
replies
953
views
How to get defenitive Amp/del/nochange using DNAcopy package?
graph DNAcopy graph DNAcopy
13.7 years ago Chiho Kwon ▴ 10
0
votes
1
reply
1.1k
views
DNAcopy installation error
DNAcopy DNAcopy
updated 14.9 years ago by 25k • written 14.9 years ago by ▴ 10
0
votes
0
replies
1.3k
views
DNAcopy
aCGH impute DNAcopy aCGH snapCGH CGHcall aCGH impute DNAcopy aCGH snapCGH CGHcall
14.9 years ago Daniel Rico ▴ 110
0
votes
0
replies
1.1k
views
DNAcopy
aCGH DNAcopy aCGH aCGH DNAcopy aCGH
14.9 years ago Anguraj Sadanandam ▴ 10
0
votes
2
replies
1.3k
views
Reproducibility of DNAcopy segmentation
DNAcopy DNAcopy
updated 15.0 years ago by 21k • written 15.0 years ago by ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k
Sorry, I had forgotten estimateGLMDisp() produces weights as well as NB dispersions. The weights from estimatGLMRobustDisp() were intended …
Answer: Mean variance curve troubleshoot filtering by Gordon Smyth 52k
You could use `filterByExpr()`, as recommended by Law et al (2018) and in the limma and edgeR case studies. However, the main problem wi…
Comment: How do I fix an odd voom plot in a combined dataset? by Gordon Smyth 52k
The fact that you have partial NA coefficients indicates that your merged dataset consists in good part of NAs for a very large number of g…
Comment: How do I fix an odd voom plot in a combined dataset? by 1sunmic2 • 0
Thanks for responding! I did change the code slightly: dge1 <- DGEList(counts = combined_data_counts) keep <- rowSums(cpm(dge1)…
Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0
The estimateGLMRobustDisp() function seems to have an effect on glmQLFit(), even in edgeR 4 (4.4.1). If I use estimateGLMRobustDisp(), like…
Votes
Answer: How do I fix an odd voom plot in a combined dataset?
Answer: How do I fix an odd voom plot in a combined dataset?
Comment: How do I fix an odd voom plot in a combined dataset?
C: How does edgeR cpm function calculate log(CPM) values?
C: How does edgeR cpm function calculate log(CPM) values?
Awards • All
Popular Question to Ken C • 0
Popular Question to gingergeiger22 • 0
Popular Question to Gordon Smyth 52k
Popular Question to James W. MacDonald 67k
Popular Question to Chris ▴ 20
Locations • All
The Netherlands, 1 hour ago
The city by the bay, 1 hour ago
UPF, Barcelona, Spain, 3 hours ago
WEHI, Melbourne, Australia, 3 hours ago
University of Cambridge, UK | NIH Bethesda, MD, 8 hours ago
Traffic: 483 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6