Analysis scripts for Numbat paper
└─ scripts/: scripts to run Numbat analysis
| └─
└─ notebooks/: analysis notebooks to reproduce results and figures
| └─
Analysis scripts and notebooks for Numbat paper
License: MIT License
@teng-gao
Hi teng,
I am confused on how to get consistent cnv boundary across various tools like WGS with Numbat, Copykat, inferCNV, and others. So I want to gain insights from the benchmark_bulk.ipynb step by step analysis. Unfortunately, I couldn't locate the code to load the RDS in the benchmark_bulk.ipynb. Could you provide the necessary RDS files in benchmark_bulk.ipynb?
Best regards
I want to know how to get the third parameter "df_allele" when running numbat::run_numbat() function.
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