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2
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The outputs of GISTIC
gistic copy number cnv written 3.7 years ago by agicict • 150 • updated 1 day ago by Kevin Blighe ♦ 56k
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48
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PennCNV-Affy BAF and LogR position notation for SNP6 data: SNP_A vs CN
ascat copy number written 3 days ago by lm687 • 50
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0
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137
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0
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Ignoring copy number when calculating VAF
R copy number variant allele frequency written 6 weeks ago by A • 3.7k
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95
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Merge regions in a BED but only if they share the same value (copy number) in a column
bedtools bedops copy number written 10 weeks ago by Luca Beltrame • 220 • updated 10 weeks ago by ATpoint ♦ 32k
4
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188
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5 follow
1
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What does mean when people say AAB copy-number state?
wgs copy number written 3 months ago by A • 3.7k • updated 3 months ago by Jan Oosting • 910
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1
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172
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1
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estimate tumor purity from capture panel data using tumor-only mode
ffpe tumor purity target capture copy number written 4 months ago by lffu_0032 • 40 • updated 3 months ago by markus.riester • 490
2
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1
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455
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1
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Creating marker file for GICTIC2
wgs copy number gistic2 segmentation written 11 months ago by A • 3.7k • updated 4 months ago by tingting.gao • 0
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159
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1
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how to normalize and compare CNV value in different samples
cna copy number cnv written 5 months ago by Shaway • 0
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3
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1.8k
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5 follow
3
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I need allele copy number information for running PyClone
wes whole-exome allele copy number written 2.7 years ago by a01039012387 • 10 • updated 6 months ago by firatuyulur • 300
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141
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Copy Number Aberration detection using Average coverage file
agilent dnaseq copy number surecall R written 6 months ago by BioCanLyse • 0
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1
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186
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1
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crlmm package in R - processing the SNP6 copy number data error No arrays above quality threshold!
R snp6 copy number written 7 months ago by misterie • 90
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193
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Not understand the value in VCF file
genome sv copy number sequencing written 7 months ago by leovam173 • 0
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244
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How to do "re-segmentation" from segmented copy number
copy number snp segmentation written 9 months ago by melpag • 0
0
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1
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205
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1
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Different Copy Number Alteration Results from Fresh Frozen Tissue Sample and matched Cell Line
scna cell line copy number shallow-seq written 9 months ago by berry • 10 • updated 9 months ago by i.sudbery ♦ 7.3k
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6 follow
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GISTIC 2.0.23 error
gistic dnacopy copy number written 2.9 years ago by mkaushal • 110 • updated 10 months ago by dompearcejankowski • 10
2
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1
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308
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1
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CNV Segmentation density - non-zero?
genome cytosnp copy number snp cnv written 10 months ago by dompearcejankowski • 10 • updated 10 months ago by markus.riester • 490
3
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1
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330
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1
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Question about chromosomal instability
gene R chromosome copy number genome written 11 months ago by Vasu • 420 • updated 11 months ago by Kevin Blighe ♦ 56k
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1
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478
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1
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Rawcopy copy number analysis
rawcopy copy number written 19 months ago by moritz.feigl • 0 • updated 12 months ago by hu19930121 • 0
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1
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391
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1
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Filtering number of markers after segmentation using DNAcopy
dnacopy copy number segmentation written 14 months ago by jrlarsen • 0 • updated 13 months ago by Eric T. • 2.6k
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6 follow
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Detecting copy number alterations based on RNA-seq data
copy number rna-seq cnv written 2.5 years ago by igor ♦ 9.9k • updated 17 months ago by bhaas • 110
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589
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computing the CNA in the cancer genomes
cna copy number cnv cancer written 19 months ago by Bogdan • 1000 • updated 19 months ago by Kevin Blighe ♦ 56k
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"missing value where TRUE/FALSE needed" in 16Stimator R script
R 16s copy number is.na 16stimator written 19 months ago by charles.bridges • 70 • updated 19 months ago by zx8754 ♦ 9.1k
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650
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Focal copy number alterations in IGV
cna tcga copy number igv written 20 months ago by neuro3030 • 10
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1.4k
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TCGA raw data (Level 1)
copy number rna-seq snp written 21 months ago by H.Hasani • 880
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How do you run GISTIC2 with ExomeCNV outputs?
gistic exomecnv copy number cnv written 23 months ago by Andy Lee • 10
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575
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High residual variance in copy number alteration analysis
exome residual variance copy number segmentation written 2.2 years ago by rmateos.1 • 10
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Preprocess Illumina Hiseq Exome for ASCAT
genome R next-gen copy number sequencing written 2.4 years ago by prideda0 • 0 • updated 2.3 years ago by Biostar ♦♦ 20
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Can we estimate actual copy number using Segment_means in TCGA level 3 CNV data?
tcga copy number cnv written 2.3 years ago by mbk0asis • 510
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Copy number variation using HTSeq/DESeq2
htseq copy number deseq written 2.4 years ago by ThePresident • 140 • updated 2.4 years ago by WouterDeCoster ♦ 43k
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876
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Matched normal necessary for Battenberg algorithm
clonality copy number snp written 2.5 years ago by cbst • 150
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