Showing : CNV • reset
4
votes
13
replies
3.9k
views
Gaia not returning results - load_cnv problem
gaia cnv
updated 3.4 years ago by • 0 • written 6.4 years ago by ▴ 30
7
votes
9
replies
2.0k
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq CNV TCGA450KHumanMethylationCalibrationDataset qsea PRAD
3.7 years ago • updated 3.6 years ago rtrivedi1 ▴ 10
4
votes
9
replies
2.7k
views
How to use cn.mops to detect CNVs from Targeted DNA Sequencing data?
cn.mops cnv targeted sequencing
updated 8.0 years ago by ▴ 540 • written 8.0 years ago by ▴ 20
2
votes
8
replies
2.7k
views
Copy Number Variation in the cn.mops Package
cn.mops cnv cnvtools
updated 9.5 years ago by 25k • written 9.5 years ago by • 0
2
votes
6
replies
2.0k
views
refSeqName issue in cn.MOPS
CNV cn.mops
updated 9.0 years ago by ▴ 540 • written 9.0 years ago by • 0
1
vote
5
replies
1.8k
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
8.9 years ago IOM ▴ 20
0
votes
4
replies
1.6k
views
Trouble following the first 5 lines of vanillaICE tutorial?
SNP6 crlmm vanillaice vanillaice crlmm cnv
updated 9.7 years ago by • 0 • written 9.7 years ago by ▴ 20
0
votes
4
replies
1.5k
views
CNV caller software
CNV
8.3 years ago Bogdan ▴ 670
2
votes
4
replies
1.1k
views
CopywriteR job runs out of memory
copywriter cnv
updated 4.7 years ago by ▴ 20 • written 4.7 years ago by ▴ 220
1
vote
4
replies
1.8k
views
Detect CNVs in target sample
CNV cn.mops
updated 9.0 years ago by ▴ 540 • written 9.0 years ago by • 0
0
votes
4
replies
1.5k
views
Does Greater Depth Allow Low Purity To Work Well?
PureCN Purity Low Purity CNV
6.7 years ago twtoal ▴ 10
0
votes
3
replies
1.2k
views
exomeCopy error with compileCopyCountSegments
exomecopy cnv
7.0 years ago ramakrishnas • 0
0
votes
3
replies
1.7k
views
Mapping of two different regions to one gene symbol
TCGA CNV
updated 9.7 years ago by ★ 7.2k • written 9.7 years ago by ▴ 60
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
1
vote
3
replies
1.5k
views
Error: could not find function "readGVF"
GVF CNV cnvGSA
updated 9.2 years ago by 67k • written 9.2 years ago by ▴ 40
3
votes
2
replies
1.1k
views
counting the sequencing reads in 10kb regions on a genome-wide scale
read counting CNV rsamtools
updated 6.9 years ago by 67k • written 6.9 years ago by ▴ 670
0
votes
2
replies
3.5k
views
Pipeline for analyzing CNV (SNP array) level 3 from TCGA
SNP CNV TCGA
9.7 years ago NS ▴ 60
2
votes
2
replies
2.0k
views
Adjusting the defaults in the cn.MOPs Package
cn.mops cnv cnvtools
updated 9.5 years ago by ▴ 540 • written 9.5 years ago by • 0
2
votes
2
replies
1.2k
views
list fo genes by cnv
cnv genes genomic ranges splitByOverlap
updated 7.8 years ago by 25k • written 7.8 years ago by ▴ 30
0
votes
2
replies
1.1k
views
Filter CNVs if contain certain gene
cnv genomic ranges cnvs
7.6 years ago julrodr80 ▴ 30
2
votes
2
replies
1.6k
views
detecting of CNV in WGS/WES data
CNV WGS WES
updated 7.5 years ago by ▴ 110 • written 7.5 years ago by ▴ 670
0
votes
2
replies
1.7k
views
cn.MOPs issue with "Error in if (all(segMedianT == 0))"
cn.mops cnv
updated 7.1 years ago by ▴ 540 • written 7.1 years ago by ▴ 20
0
votes
2
replies
2.9k
views
Error: vector memory exhausted (limit reached?)
tcgabiolinks tcga cnv mac os x gaia
updated 6.5 years ago by ▴ 20 • written 6.5 years ago by ▴ 30
0
votes
2
replies
1.4k
views
CNV in Normal Samples?
PureCN Germline Normal CNV
updated 6.3 years ago by ▴ 130 • written 6.3 years ago by ▴ 10
1
vote
2
replies
1.4k
views
Difficulty dowloading hg38 cnv data in tcgabiolinks
TCGAbiolinks cnv
3.2 years ago raf4 ▴ 30
0
votes
1
reply
944
views
CNV plot using cn.mops
cnv R plot visualization cn.mops software error
5.1 years ago ari • 0
0
votes
1
reply
986
views
PureCN: Why is average coverage used for segmentation and not the denoised fragment counts?
PureCN CNV CNA segmentation calculateTangentNormal
updated 5.1 years ago by ▴ 130 • written 5.1 years ago by • 0
0
votes
1
reply
1.2k
views
Union of GenomicRanges problem when one range is empty
genomicranges R cnv
8.5 years ago WouterDeCoster ▴ 130
0
votes
1
reply
1.7k
views
ExomeDepth Package Error Messages
cnv exome
8.9 years ago Bio152 ▴ 150
0
votes
1
reply
1.3k
views
NGScopy package throwing error during installation
NGScopy installation CNV
9.5 years ago JstRoRR • 0
0
votes
1
reply
868
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
4.9 years ago metzgerlukas • 0
0
votes
1
reply
1.8k
views
CopywriteR: CNV calling on normals samples / gaps in chromosomes
copynumber cnvtools cnv copywriteR
updated 8.5 years ago by ▴ 170 • written 8.5 years ago by • 0
0
votes
1
reply
1.0k
views
Error using singlecn.mops for cnv detection in WGS data
cnv cn.mops singlecn.mops
updated 2.9 years ago by • 0 • written 5.2 years ago by • 0
0
votes
1
reply
1.4k
views
exomeCopy copy number setting
cnv exomecopy
updated 9.1 years ago by 43k • written 9.1 years ago by ▴ 20
0
votes
0
replies
1.4k
views
'GenomeInfoDb' error in the cn.MOPS Package
cnv genomeinfodb
9.5 years ago voksdvoks • 0
0
votes
0
replies
976
views
visualize CNV data based on WGS
CNV
7.0 years ago Bogdan ▴ 670
0
votes
0
replies
1.4k
views
crlmm: Does it support Illumina BeadChip platform HumanCore-24v1-0_A
cnv cnvtools crlmm
8.5 years ago enriquev • 0
0
votes
0
replies
1.2k
views
how to analyze "Beta-score" and get CNVdata using Comunee
conumee CNV 450K
6.9 years ago bird.of.clockwise • 0
0
votes
0
replies
1.1k
views
Noise Analyses of CNV Data from TCGA
tcgabiolinks tcga cnv noise pruning
6.5 years ago jrlarsen ▴ 10
0
votes
0
replies
715
views
Applying exomeCopy to call CNVs withouts controls considering batch effects
exomeCopy CNV WES
3.8 years ago Cheng • 0
0
votes
0
replies
1.6k
views
DNAcopy default settings and SNP6.0 arrays
SNP DNAcopy SNP6.0 CNV
10.0 years ago giovanni.dario • 0
0
votes
0
replies
759
views
ExomeDepth package- error with "select.reference.set" function
ExomeDepth CNV
5.1 years ago Bouzid.a ▴ 20
0
votes
0
replies
1.4k
views
DNA methylation 450k data - minfi - preprocessFunnorm - CNV cases vs non-CNV controls
CNV minfi preprocessing dna methylation
7.8 years ago Thomas • 0
0
votes
0
replies
896
views
cn.MOPS output - mean/median of what?
cn.MOPS CNV copy number
4.9 years ago liorglic ▴ 10
0
votes
0
replies
620
views
cn.mops : undef chromsome using data matrix as input
CNV cn.mops undef
4.9 years ago ankita.narang86 • 0
45 results • Page 1 of 1
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Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D by Michael Love 43k
hi, for questions about what statistical analysis approach to use, I recommend you work with a local statistician or someone familiar with …
Comment: Problems with oarfish + tximport + swish by Michael Love 43k
I'm not certain that this will work with Oarfish, the documentation only mentions Salmon and piscem. I'd use tximport for now.
Answer: Problems with oarfish + tximport + swish by Michael Love 43k
> This is fine Did tximeta() print that a matching transcriptome was found?
Answer: DESeq2 Heatmap by swbarnes2 ★ 1.4k
> However, I've been asked why the first column (vehicle/control) isn't > entirely zero on the log fold change (logFC) expression scale. …
Comment: Biomart and ensembl not working? by James W. MacDonald 67k
``` > library(biomaRt) > mart <- useEnsembl("ensembl","hsapiens_gene_ensembl") Ensembl site unresponsive, trying useast mirror > mart Objec…
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Answer: Limma Interaction Effect with Covariates
Comment: DESeq2 for single cell pseudobulk processing
C: Limma: how to get same output as topTable but for all the genes ?
A: Processing agilent data by limma
A: Linear regression in DESeq2
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