Showing : cnv • reset
7
votes
9
replies
1.6k
views
QSEA : Internal CNV analysis and cancer type-specific TCGA 450K Human Methylation Calibration Dataset
MEDIP-seq CNV TCGA450KHumanMethylationCalibrationDataset qsea PRAD
2.9 years ago rtrivedi1 ▴ 10
4
votes
13
replies
3.3k
views
Gaia not returning results - load_cnv problem
gaia cnv
updated 2.6 years ago by • 0 • written 5.7 years ago by ▴ 30
4
votes
9
replies
2.3k
views
How to use cn.mops to detect CNVs from Targeted DNA Sequencing data?
cn.mops cnv targeted sequencing
updated 7.3 years ago by ▴ 540 • written 7.3 years ago by ▴ 20
3
votes
2
replies
958
views
counting the sequencing reads in 10kb regions on a genome-wide scale
read counting CNV rsamtools
updated 6.1 years ago by 65k • written 6.1 years ago by ▴ 670
2
votes
2
replies
1.7k
views
Adjusting the defaults in the cn.MOPs Package
cn.mops cnv cnvtools
updated 8.8 years ago by ▴ 540 • written 8.8 years ago by • 0
2
votes
6
replies
1.8k
views
refSeqName issue in cn.MOPS
CNV cn.mops
updated 8.3 years ago by ▴ 540 • written 8.3 years ago by • 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 ▴ 540 • written 5.8 years ago by • 0
2
votes
2
replies
1.1k
views
list fo genes by cnv
cnv genes genomic ranges splitByOverlap
updated 7.0 years ago by 25k • written 7.0 years ago by ▴ 30
2
votes
8
replies
2.3k
views
Copy Number Variation in the cn.mops Package
cn.mops cnv cnvtools
updated 8.8 years ago by 25k • written 8.8 years ago by • 0
2
votes
2
replies
1.3k
views
detecting of CNV in WGS/WES data
CNV WGS WES
updated 6.8 years ago by ▴ 110 • written 6.8 years ago by ▴ 670
2
votes
4
replies
881
views
CopywriteR job runs out of memory
copywriter cnv
updated 4.0 years ago by ▴ 20 • written 4.0 years ago by ▴ 190
1
vote
2
replies
1.0k
views
Difficulty dowloading hg38 cnv data in tcgabiolinks
TCGAbiolinks cnv
2.5 years ago raf4 ▴ 20
1
vote
5
replies
1.6k
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
8.2 years ago IOM ▴ 20
1
vote
3
replies
1.4k
views
Error: could not find function "readGVF"
GVF CNV cnvGSA
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 40
1
vote
4
replies
1.6k
views
Detect CNVs in target sample
CNV cn.mops
updated 8.3 years ago by ▴ 540 • written 8.3 years ago by • 0
0
votes
3
replies
1.0k
views
exomeCopy error with compileCopyCountSegments
exomecopy cnv
6.3 years ago ramakrishnas • 0
0
votes
0
replies
827
views
visualize CNV data based on WGS
CNV
6.3 years ago Bogdan ▴ 670
0
votes
0
replies
967
views
how to analyze "Beta-score" and get CNVdata using Comunee
conumee CNV 450K
6.2 years ago bird.of.clockwise • 0
0
votes
4
replies
1.2k
views
Does Greater Depth Allow Low Purity To Work Well?
PureCN Purity Low Purity CNV
5.9 years ago twtoal ▴ 10
0
votes
0
replies
876
views
Noise Analyses of CNV Data from TCGA
tcgabiolinks tcga cnv noise pruning
5.8 years ago jrlarsen ▴ 10
0
votes
2
replies
2.5k
views
Error: vector memory exhausted (limit reached?)
tcgabiolinks tcga cnv mac os x gaia
updated 5.7 years ago by ▴ 20 • written 5.7 years ago by ▴ 30
0
votes
2
replies
1.1k
views
CNV in Normal Samples?
PureCN Germline Normal CNV
updated 5.6 years ago by ▴ 130 • written 5.6 years ago by ▴ 10
0
votes
1
reply
845
views
Error using singlecn.mops for cnv detection in WGS data
cnv cn.mops singlecn.mops
updated 2.1 years ago by • 0 • written 4.5 years ago by • 0
0
votes
0
replies
555
views
ExomeDepth package- error with "select.reference.set" function
ExomeDepth CNV
4.4 years ago Bouzid.a ▴ 20
0
votes
1
reply
763
views
CNV plot using cn.mops
cnv R plot visualization cn.mops software error
4.4 years ago ari • 0
0
votes
1
reply
793
views
PureCN: Why is average coverage used for segmentation and not the denoised fragment counts?
PureCN CNV CNA segmentation calculateTangentNormal
updated 4.4 years ago by ▴ 130 • written 4.4 years ago by • 0
0
votes
0
replies
744
views
cn.MOPS output - mean/median of what?
cn.MOPS CNV copy number
4.2 years ago liorglic ▴ 10
0
votes
4
replies
1.4k
views
Trouble following the first 5 lines of vanillaICE tutorial?
SNP6 crlmm vanillaice vanillaice crlmm cnv
updated 8.9 years ago by • 0 • written 8.9 years ago by ▴ 20
0
votes
0
replies
462
views
cn.mops : undef chromsome using data matrix as input
CNV cn.mops undef
4.1 years ago ankita.narang86 • 0
0
votes
0
replies
569
views
Applying exomeCopy to call CNVs withouts controls considering batch effects
exomeCopy CNV WES
3.1 years ago Cheng • 0
0
votes
1
reply
718
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
4.1 years ago metzgerlukas • 0
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
2
replies
3.3k
views
Pipeline for analyzing CNV (SNP array) level 3 from TCGA
SNP CNV TCGA
9.0 years ago NS ▴ 60
0
votes
3
replies
1.5k
views
Mapping of two different regions to one gene symbol
TCGA CNV
updated 8.9 years ago by ★ 7.2k • written 8.9 years ago by ▴ 60
0
votes
0
replies
1.3k
views
'GenomeInfoDb' error in the cn.MOPS Package
cnv genomeinfodb
8.8 years ago voksdvoks • 0
0
votes
1
reply
1.1k
views
NGScopy package throwing error during installation
NGScopy installation CNV
8.7 years ago JstRoRR • 0
0
votes
1
reply
1.2k
views
exomeCopy copy number setting
cnv exomecopy
updated 8.4 years ago by 41k • written 8.4 years ago by ▴ 20
0
votes
1
reply
1.4k
views
ExomeDepth Package Error Messages
cnv exome
8.2 years ago Bio152 ▴ 150
0
votes
1
reply
1.5k
views
CopywriteR: CNV calling on normals samples / gaps in chromosomes
copynumber cnvtools cnv copywriteR
updated 7.7 years ago by ▴ 170 • written 7.8 years ago by • 0
0
votes
0
replies
1.2k
views
crlmm: Does it support Illumina BeadChip platform HumanCore-24v1-0_A
cnv cnvtools crlmm
7.7 years ago enriquev • 0
0
votes
1
reply
969
views
Union of GenomicRanges problem when one range is empty
genomicranges R cnv
7.7 years ago WouterDeCoster ▴ 130
0
votes
4
replies
1.3k
views
CNV caller software
CNV
7.6 years ago Bogdan ▴ 670
0
votes
0
replies
1.2k
views
DNA methylation 450k data - minfi - preprocessFunnorm - CNV cases vs non-CNV controls
CNV minfi preprocessing dna methylation
7.1 years ago Thomas • 0
0
votes
2
replies
933
views
Filter CNVs if contain certain gene
cnv genomic ranges cnvs
6.8 years ago julrodr80 ▴ 30
0
votes
2
replies
1.4k
views
cn.MOPs issue with "Error in if (all(segMedianT == 0))"
cn.mops cnv
updated 6.4 years ago by ▴ 540 • written 6.4 years ago by ▴ 20
45 results • Page 1 of 1
Recent ...
Replies
Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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