Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
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Updated
Jul 8, 2024 - Python
Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.
ClassifyCNV: a tool for clinical annotation of copy-number variants
cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
Bioinformatics CNV Detection with Random Forest Model
Hidden Markov Model based Copy number caller
The performance of individual CNV detection software and state-of-the-art sequencing. All analyses were performed using the Python and R programming languages.
A high-accuracy tool for integrating scDNA-seq and scRNA-seq data
In this repository I backup the pipelines I write for the project I am involved
A Snakemake pipeline for copy number variant calling without normal tissue samples
An adaptable method for analyzing SNVs, INDELs, and CNVs from Whole Exome Sequencing (WES) data, emphasizing germline variants.
A repo that contains miscellaneous Python/C++ modules/programs, a standalone Python module 'palos' by the yfish group (can be installed by pip).
WES Analysis scripts for "Immune determinants of response to neoadjuvant chemo-radiation in esophageal adenocarcinoma" publication
AWS Lambda and S3 implementation of XCNV
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