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Hello,
By the code:
`svaba run -t $TUM_BAM -t $NORM_BAM -p $CORES -k $k -a $name -G $REF`
I found the target SV in *.svaba.sv.vcf, but the target SV is not found in *.alignments.txt.gz. Is there so…
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Hi raphael group,
Thanks for developing this amazing tool. I am quite new to clonal tree construction and I am learning to use the SCARLET tool. I tried with the following command using the example…
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# Issue
As of now, odf_parser convert each ODF variable to the data type associated with the variable under the TYPE ODF attribute.
The following mapping use applied:
``` python
odf_dtypes = {'…
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Change warning message to venn diagram of sample IDs in mutalisk dataset vs MAF dataset
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Hi,
I have multiple 30X WGS data and want to try AA on it. As mentioned in other issues, 30X is too large for AA and downsampling is recommended. But I'm not sure which one is the right way for downs…
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CNV and SV modes have an output directory parameter, but not SNV mode. Moreover, CNV and SV modes **require** a separate output folder. It also creates a folder named `input` and copies all of the VCF…
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The style for `.code` uses `white-space: nowrap;` which causes all line breaks in e.g., preformated code blocks to be ignored. It seems almost any other value than `nowrap` would have made sense. This…
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https://chat.google.com/room/AAAAAYpDdc8/_iy7t8NFV-I
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From (Epic) - Jan 4, 2023
1. How did you decide which variations to include in the current sample data set?
1. Is it possible to run your current transformation on all the nonstructural alleles…
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Good day,
I like how accurate and fast the tool is! The pipeline assigns which cells are likely to be normal and which are malignant. I would like to know whether there is a way to score the cells …