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Dear sciCNV developers,
I have 2 questions about sciCNV regarding control cell selection and multiple baseline feature.
Firstly, I would like to ask if gene expression data from control cells of…
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This request was created from a contribution made by tc on February 09, 2022 17:49 UTC.
Link: [https://gatk.broadinstitute.org/hc/en-us/community/posts/4418364848795-java-lang-IllegalArgumentExceptio…
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I noticed that AA can work with tumor-only WGS data since it was tested on the cell line data. I am just wondering what would be the benefits if giving with paired normal WGS as well.
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Dear Davide,
Thanks for your great work of VISOR!
We used visor to simulate WGS data in bam format to test if our CNV detection method works good. Now we want to predict the CNV prediction accura…
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Hi,
I'm a new to FREEC. Thanks for this excellent tool. I tired to use FREEC to analyze CNV + LOH of my WES data. However, ERROR occurred:
Control-FREEC v11.6 : a method for automatic detection of …
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https://ming-lian.github.io/2019/08/19/Bioinfo-ML-Club-6th/
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VR needs to have a path for representing translocations.
Allele is currently defined as a contiguous sequence change at a single location. Translocations and junctions are unlikely to fit in that m…
reece updated
8 months ago
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hi~ sir：
my bams all are more than 30X wiht B37。
Is AmpliconArchitect very slow when run on such large bam？
Waiting for your reply，thanks。
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### Description
During development of including CNVkit results in GENS I saw that a lot of bins that could be used for higher resolution visualisation of CNVs are dropped during the CNVkit fix step.
…
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Hi,
Recently I am working on CNV analysis with CNVkit tool.
For now, I analyse CNV without use gender parameter. So if my sample come from a woman, my results include loss of Y chromosome. This …