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CNV
•
reset
1
vote
2
replies
757
views
Difficulty dowloading hg38 cnv data in tcgabiolinks
TCGAbiolinks
cnv
23 months ago • updated 22 months ago
raf4
▴ 20
7
votes
9
replies
1.3k
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq
CNV
TCGA450KHumanMethylationCalibrationDataset
qsea
PRAD
2.4 years ago • updated 2.3 years ago
rtrivedi1
▴ 10
0
votes
0
replies
433
views
Applying exomeCopy to call CNVs withouts controls considering batch effects
exomeCopy
CNV
WES
2.5 years ago
Cheng
• 0
4
votes
13
replies
2.7k
views
Gaia not returning results - load_cnv problem
gaia
cnv
updated 2.1 years ago by
juanmafernandezm86
• 0 • written 5.1 years ago by
rina
▴ 20
2
votes
4
replies
680
views
CopywriteR job runs out of memory
copywriter
cnv
updated 3.4 years ago by
oscarkrijgsman
▴ 20 • written 3.4 years ago by
Ram
▴ 180
0
votes
1
reply
568
views
How to use panelcn.mops to detect CNVs from whole genome data by getting count windows from BED file?
cn.mops
panelcn.mops
CNV detection
CNV
3.6 years ago
metzgerlukas
• 0
0
votes
0
replies
352
views
cn.mops : undef chromsome using data matrix as input
CNV
cn.mops
undef
3.6 years ago
ankita.narang86
• 0
0
votes
0
replies
570
views
cn.MOPS output - mean/median of what?
cn.MOPS
CNV
copy number
3.6 years ago
liorglic
▴ 10
0
votes
1
reply
568
views
PureCN: Why is average coverage used for segmentation and not the denoised fragment counts?
PureCN
CNV
CNA
segmentation
calculateTangentNormal
updated 3.8 years ago by
markus.riester
▴ 130 • written 3.8 years ago by
sruddy17
• 0
0
votes
1
reply
633
views
CNV plot using cn.mops
cnv
R
plot visualization
cn.mops
software error
3.8 years ago
ari
• 0
0
votes
0
replies
414
views
ExomeDepth package- error with "select.reference.set" function
ExomeDepth
CNV
3.8 years ago
Bouzid.a
▴ 20
0
votes
1
reply
677
views
Error using singlecn.mops for cnv detection in WGS data
cnv
cn.mops
singlecn.mops
updated 19 months ago by
SicilianSilicon
• 0 • written 3.9 years ago by
frez111
• 0
0
votes
2
replies
895
views
CNV in Normal Samples?
PureCN
Germline
Normal
CNV
updated 5.0 years ago by
markus.riester
▴ 130 • written 5.0 years ago by
twtoal
▴ 10
0
votes
2
replies
2.3k
views
Error: vector memory exhausted (limit reached?)
tcgabiolinks
tcga
cnv
mac os x
gaia
updated 5.2 years ago by
rreck
▴ 20 • written 5.2 years ago by
rina
▴ 20
2
votes
3
replies
1.2k
views
Doubt about WL in cn.mops
dnacopy
dnaseq
genomic
cn.mops
cnv
updated 5.2 years ago by
Günter Klambauer
▴ 540 • written 5.2 years ago by
Cased
• 0
0
votes
0
replies
728
views
Noise Analyses of CNV Data from TCGA
tcgabiolinks
tcga
cnv
noise
pruning
5.2 years ago
jrlarsen
▴ 10
0
votes
4
replies
964
views
Does Greater Depth Allow Low Purity To Work Well?
PureCN
Purity
Low Purity
CNV
5.4 years ago
twtoal
▴ 10
3
votes
2
replies
787
views
counting the sequencing reads in 10kb regions on a genome-wide scale
read counting
CNV
rsamtools
updated 5.6 years ago by
James W. MacDonald
63k • written 5.6 years ago by
Bogdan
▴ 660
0
votes
0
replies
772
views
how to analyze "Beta-score" and get CNVdata using Comunee
conumee
CNV
450K
5.6 years ago
bird.of.clockwise
• 0
0
votes
0
replies
680
views
visualize CNV data based on WGS
CNV
5.7 years ago
Bogdan
▴ 660
0
votes
3
replies
882
views
exomeCopy error with compileCopyCountSegments
exomecopy
cnv
5.7 years ago
ramakrishnas
• 0
0
votes
2
replies
1.2k
views
cn.MOPs issue with "Error in if (all(segMedianT == 0))"
cn.mops
cnv
updated 5.8 years ago by
Günter Klambauer
▴ 540 • written 5.8 years ago by
martyferr90
▴ 20
2
votes
2
replies
1.1k
views
detecting of CNV in WGS/WES data
CNV
WGS
WES
updated 6.2 years ago by
Haiying.Kong
▴ 110 • written 6.2 years ago by
Bogdan
▴ 660
0
votes
2
replies
796
views
Filter CNVs if contain certain gene
cnv
genomic ranges
cnvs
6.2 years ago
julrodr80
▴ 30
2
votes
2
replies
946
views
list fo genes by cnv
cnv
genes
genomic ranges
splitByOverlap
updated 6.5 years ago by
Martin Morgan
25k • written 6.5 years ago by
julrodr80
▴ 30
0
votes
0
replies
1.0k
views
DNA methylation 450k data - minfi - preprocessFunnorm - CNV cases vs non-CNV controls
CNV
minfi
preprocessing
dna methylation
6.5 years ago
Thomas
• 0
4
votes
9
replies
2.1k
views
How to use cn.mops to detect CNVs from Targeted DNA Sequencing data?
cn.mops
cnv
targeted sequencing
updated 6.7 years ago by
Günter Klambauer
▴ 540 • written 6.7 years ago by
Bouzid.a
▴ 20
0
votes
4
replies
1.2k
views
CNV caller software
CNV
7.0 years ago
Bogdan
▴ 660
0
votes
1
reply
832
views
Union of GenomicRanges problem when one range is empty
genomicranges
R
cnv
7.2 years ago
WouterDeCoster
▴ 130
0
votes
0
replies
1.1k
views
crlmm: Does it support Illumina BeadChip platform HumanCore-24v1-0_A
cnv
cnvtools
crlmm
7.2 years ago
enriquev
• 0
0
votes
1
reply
1.3k
views
CopywriteR: CNV calling on normals samples / gaps in chromosomes
copynumber
cnvtools
cnv
copywriteR
updated 7.2 years ago by
t.kuilman
170 • written 7.2 years ago by
ahinsahr11
• 0
0
votes
1
reply
1.2k
views
ExomeDepth Package Error Messages
cnv
exome
7.6 years ago
Bio152
▴ 150
1
vote
5
replies
1.4k
views
Is there any way of exporting CNV data from Affymetrix SNP 6.0 arrays from Nexus Software for OncoScan?
cnv
nexus for oncoscan
Affymetrix 6.0
.BGR
7.6 years ago
IOM
▴ 20
1
vote
4
replies
1.4k
views
Detect CNVs in target sample
CNV
cn.mops
updated 7.7 years ago by
Günter Klambauer
▴ 540 • written 7.7 years ago by
ashkot09
• 0
2
votes
6
replies
1.6k
views
refSeqName issue in cn.MOPS
CNV
cn.mops
updated 7.7 years ago by
Günter Klambauer
▴ 540 • written 7.7 years ago by
ashkot09
• 0
0
votes
1
reply
1.1k
views
exomeCopy copy number setting
cnv
exomecopy
updated 7.8 years ago by
Michael Love
40k • written 7.8 years ago by
cafelumiere12
▴ 20
1
vote
3
replies
1.3k
views
Error: could not find function "readGVF"
GVF
CNV
cnvGSA
updated 7.9 years ago by
James W. MacDonald
63k • written 7.9 years ago by
Vinicius Henrique da Silva
▴ 40
0
votes
1
reply
932
views
NGScopy package throwing error during installation
NGScopy
installation
CNV
8.2 years ago
JstRoRR
• 0
2
votes
2
replies
1.6k
views
Adjusting the defaults in the cn.MOPs Package
cn.mops
cnv
cnvtools
updated 8.2 years ago by
Günter Klambauer
▴ 540 • written 8.2 years ago by
voksdvoks
• 0
2
votes
8
replies
2.1k
views
Copy Number Variation in the cn.mops Package
cn.mops
cnv
cnvtools
updated 8.2 years ago by
Martin Morgan
25k • written 8.2 years ago by
bioconductor
• 0
0
votes
0
replies
1.1k
views
'GenomeInfoDb' error in the cn.MOPS Package
cnv
genomeinfodb
8.2 years ago
voksdvoks
• 0
0
votes
3
replies
1.4k
views
Mapping of two different regions to one gene symbol
TCGA
CNV
updated 8.4 years ago by
Marc Carlson
★ 7.2k • written 8.4 years ago by
NS
▴ 60
0
votes
4
replies
1.2k
views
Trouble following the first 5 lines of vanillaICE tutorial?
SNP6
crlmm
vanillaice
vanillaice crlmm
cnv
updated 8.4 years ago by
rscharpf
• 0 • written 8.4 years ago by
cafelumiere12
▴ 20
0
votes
2
replies
3.1k
views
Pipeline for analyzing CNV (SNP array) level 3 from TCGA
SNP
CNV
TCGA
8.4 years ago
NS
▴ 60
0
votes
0
replies
1.3k
views
DNAcopy default settings and SNP6.0 arrays
SNP
DNAcopy
SNP6.0
CNV
8.7 years ago
giovanni.dario
• 0
45 results • Page
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Comment: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar
by
James W. MacDonald
63k
I should also point out that you can find this out by yourself by going to [ensembl][1], clicking on the Biomart link, and then scrolling t…
Answer: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar
by
James W. MacDonald
63k
It's my understanding that the archived Biomart data are not complete, which is likely why you cannot get sequences. But you apparently jus…
Comment: ComBat_seq function in sva package does not return a matrix
by
Federico
▴ 10
Thanks for your help, problem solved :)
Answer: ComBat_seq function in sva package does not return a matrix
by
ATpoint
★ 3.4k
That happens if your `x` is a data.frame rather than a matrix. It is listed under the Q&A section in https://github.com/zhangyuqing/ComBat-…
Answer: error running exp2grn
by
Fabricio Almeida-Silva
▴ 40
Hi, Adriana. It seems like the gene IDs you specified in `Host13tfs$Protein.ID` do not match any gene IDs in the row names of your expr…
Votes
ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
Answer: ComBat_seq function in sva package does not return a matrix
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