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MTB-Suchmaske:
Wenn man bei einer CNV z.B. 2 betroffene Gene aussucht, und dann den ersten Chip wieder über das X entfernt, werden beide Chips gelöscht.
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Hello,
I have been using TIDDIT 2.12.2 and decided to update to the latest version. I noticed that much larger CNVs are being called. Using Genome in a Bottle HG002 as an example, I see 2.5x more …
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Hi,
I'm having issues trying to run SigProfiler for CNV data using custom CNV calls. We have an in-house pipeline for CNV calls that is similar to the ASCAT approach, tailored to our WGS data. I t…
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Hello! I've been trying to use your software, but I only ever see global CNV changes - no hint of single cell changes.
I've tried changing the windows size between 1e5, 5e5, and 1e6, the minFrags …
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Dear developers,
Thank you very much for this advanced tool. I have a number of questions on modelling of CNVs on Tapestri data (thousands of cells and 400 amplicons):
1. I am interested in both…
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If the `cnv_region` contains multiple genes, the CNV heatmap rows will be ordered by the gene label rather than their genomic position. This can make it a bit confusing to try to understand the struct…
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Currently missing CNV HMM data due to high coverage variance is rendered in white in the CNV heatmap. Normal copy number of 2 is also rendered as white. This can be confusing and allow mistaken interp…
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Hi team
I realise that Spectre may struggle on CN calling in adaptive sampling due to stochastic read depth variation - have a sample that has undergone adaptive LR of BRCA. There is a clear DUP on…
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Hi,
I am using copykat to calculate CNV on a cancer sample, and results showed that not only cancer cells, but also there were a lot of macrophages with CNV.
Could macrophages have CNV in cancer sa…
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inferCNV uses a [hidden markov model](https://github.com/broadinstitute/inferCNV/wiki/inferCNV-HMM-based-CNV-Prediction-Methods) to turn the smoothed gene expression into genomic regions that are subj…