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Hi,
I am a pretty new user of PureCN, I have managed to get it to work and generate results files, but I am not sure if it is working correctly. I have installed and used PureCN 2.1.0 version and hav…
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https://mp.weixin.qq.com/s/OzE6J9DxebsWcmiuvq8fBQ
ixxmu updated
2 years ago
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## Done Condition (What do we need? Why do we need it? Keep this is small as possible!)
Cmo-pipelines uses SV instead of Fusions
## Technical Description (How are we going to achieve the above)
We hav…
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Hi,
I am getting an error when the ensemble calling starts. I have tried to fix it by changing to
ensemble:
numpass: 2
according to a previous issue. But it didn't work.
[2021-07-19T07:03Z…
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Hi everyone,
I have some **Tumor only Illumina data** in my possession and I want to call **both Somatic and Germline variants**.
My usecase is to detect ALL Somatic and Germline variants of a Tu…
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Hi,
How should the vcf be annotated for cancer analysis? Do you have an example .ini file?
Regards
Linda
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hi，I get a issue:
/somaticseq/vcfModifier/modify_MuTect2.py", line 64, in convert
normal_index = header.index(normal_name) - 9
UnboundLocalError: local variable 'normal_name' referenced befor…
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Hi,
I am encountering the following error running a split run of SuperFreq:
Error in annotateSomaticQs(variants$variants, genome = genome, resourceDirectory = resourceDirectory, :
NA x or s…
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## Describe the issue
As the title states, we found that VEP interrupts the processing after reading 2 or more consecutive `` variants in input VCF. These `` variants and any following variant are si…
pdp10 updated
2 years ago
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Hiya,
I've run my analysis using both -x and without -x to call somatic SVs. Comparing both VCF files on IGV, seems like some variants get excluded even though they aren't specified in the exclus…