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Is it possible to compute the Loss of heterocigosity from the Copy number variation (CNV) data file ?
wgs cnv written 1 day ago by aliciapm94 • 0 • updated 1 day ago by d-cameron • 2.2k
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Calling copynumbers from Single-end GBS (genome by sequencing) data
cnv single-end control-freec gbs written 4 days ago by mikeruigrok • 0
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1
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337
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1
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How are the log2 values in CNVkit .cnr files calculated?
cnvkit .cnr cnv wgs written 5 months ago by Jordan • 1.2k • updated 6 days ago by Kevin Blighe ♦ 65k
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49
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1
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Copy number variation data for population structure analysis
cnv written 7 days ago by rthapa • 10 • updated 6 days ago by khalid.belkhir • 30
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48
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CNV .vcf retrieve involved genes
vcf gatk genes cnv written 8 days ago by cocchi.e89 • 90
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72
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1
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convert GATK germline CNV .vcf output to .seg/.cns format to plot
vcf gatk seg cnv cns written 11 days ago by cocchi.e89 • 90 • updated 11 days ago by newbio17 • 240
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119
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Somatic SNVs vs. Germline SNPs for allele-specific copy number analysis
cnv written 13 days ago by vctrm67 • 10
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Why is a CNV of -1.8, 0.7 (...) more important than saying 2-fold, 3-fold (...) ?
cnv written 14 days ago by Penkster • 0
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100
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GISTIC 2.0 for sequencing data
gistic wgs cna cnv sequencing written 15 days ago by vctrm67 • 10
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84
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Calling CNVs using a single tumor sample
cnv written 18 days ago by vctrm67 • 10
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2
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How to convert and annotate apt-probeset-genotype into PLINK format
affymetrix6 snp plink cnv penncnv written 4.6 years ago by Myosotis1979 • 10 • updated 18 days ago by gitanjali.tandon • 0
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78
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CNV segmentation purpose
cnv written 19 days ago by vctrm67 • 10
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99
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Structural variations (SV calling using Parliament2)
sv software error cnv written 28 days ago by Nitha • 10 • updated 28 days ago by Kevin Blighe ♦ 65k
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2
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212
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TCGA CNV data 1p/19q codeletion (whole arm deletion)
tcga gbm cnv codeletion lgg written 3 months ago by kwanghoon • 10 • updated 4 weeks ago by gabriel.rosser • 180
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109
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GATK CNV germline plot vcf results
vcf gatk germline cnv plot written 4 weeks ago by cocchi.e89 • 90
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77
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Cellranger cnv analysis bin size
singlecell cellranger_dna cellranger cnv written 5 weeks ago by noshadho • 0
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113
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Error in GATK germline CNV caller
gatk cnv germline written 5 weeks ago by cocchi.e89 • 90
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14 follow
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How to extract the list of genes from TCGA CNV data
tcga genes cnv written 2.4 years ago by Chaimaa • 230 • updated 6 weeks ago by akshay_ware • 10
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117
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How to check the frequency of CNV (amp or del) in TCGA CNV datasets ?
R next-gen chip-seq cnv tcga written 6 weeks ago by akshay_ware • 10
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131
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GermlineCNVCaller- Interval scattering for WES data
gatk wes germlinecnvcaller cnv written 7 weeks ago by Z-F • 20
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143
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Getting huge size of CNV region from CNV-kit with hybrid data.
cnvkit wes cnv written 7 weeks ago by Makplus T • 70
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WGS hg19/hg38 Panel-of-Normals (GATK SV-CNV)
sv gatk pon panel-of-normals cnv written 8 weeks ago by cocchi.e89 • 90
0
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1
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183
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TCGA CNV data reformatting
cnv written 9 weeks ago by vctrm67 • 10 • updated 8 weeks ago by markus.riester • 500
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135
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how should I filter call.cns results according to cn depth p_ttest probes weight
cnv written 8 weeks ago by linouhao • 0
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110
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CNV profile with phylogenetic tree
genome next-gen phylogenetic tree snp cnv written 9 weeks ago by katjanjarosz • 10
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161
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6 follow
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Whole Genome Sequencing Data Annotation
bioinformatics whole genome cnv sequencing written 9 weeks ago by ashley_hertzog • 0
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199
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How to generate the contigs ploidy priors table (yeast) for GATK DetermineGermlineContigPloidy --contig-ploidy-priors option ?
variant-calling gatk cnv gcnv written 9 weeks ago by mikizu • 0
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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 3.0 years ago by igor ♦ 11k
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145
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CNVkit with tumor only bam and flat reference
cnvkit tumor cnv written 12 weeks ago by youki • 0 • updated 12 weeks ago by genomax ♦ 89k
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77
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0
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BAF and L2R Illumina vs Affymetrix
baf l2r cnv written 12 weeks ago by Floris Brenk • 950
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