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What does the following warning mean?
"-controlsDir" is directly listed at https://molgenis.gitbooks.io/convading/#cnv-detection
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COMMANDLINE OPTIONS IN AFFECT:
-mode StartWithBestScore
-inp…
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Hi,
I have already used [CNVkit](https://cnvkit.readthedocs.io/en/stable/index.html) to segment my bulk WGS data and generate CNV calls.
Is it possible to shoehorn the output of this, [segment…
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Dear dev community,
Would you consider building a container for [PennCNV tool](http://penncnv.openbioinformatics.org/en/latest/)?
Briefly, it is a free software tool for Copy Number Variation (CNV…
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I have successfully run the AA program on hundreds of samples in the past, but when I tried to run it again after a long time, I encountered this error:
[MOSEK:ERROR] Error when using MOSEK: (1001) …
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Currently, I have been using ichorCNA for cfDNA analysis in HCC. However, results of several patients showed that their tumor fraction equal to 0. Is there a theoretical threshold for ichorCNA detecti…
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Hi @GermanDemidov,
Thanks for the precious tool and the great documentation on it.
I am considering to use the tool for germline (and eventually mosaic) CNV calling in panels and WES scenarios.
…
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Hi there,
I would like to apply OFF-PEAK to some targeted EM-seq data (obtained using the Twist Methylome Panel). However, since the tool was designed specifically for exome sequencing data, all ta…
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Can I determine which regions are LOH(Loss of Heterozygosity)) based on the results of CNV analysis?
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@mandichen
Hi，mandichen
Good job and I am very interested in your research, but I have some questions.I used the sample data BM2_v0s0_n_200.h5ad and Macosko_cell_cycle_genes.txt to get the follow…
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Hi Shilin,
I've managed to run ExonDel without errors.
It finishes without giving any errors.
The console output can be seen hereunder:
[Mon Jul 27 10:55:47 2015] All genes will be used
[Mon Jul 27…