shishenyxx

Xiaoxu Yang's repositories

DeepMosaic

DeepMosaic is a deep-learning-based mosaic single nucleotide classification tool without the need of matched control information.

Language:PythonNOASSERTION41 8 32

Adult_brain_somatic_mosaicism

This repository collects pipelines, codes, and some intermediate results for adult brain somatic mosaicism study.

Language:PythonGPL-3.014 20

Malformations of cortical development (MCD) are neurological conditions displaying focal disruption of cortical architecture and disrupted cellular organization that occurs during embryogenesis. This repository contains the pipelines for data processing, codes for data analysis and plotting for the large-scale MCD data analysis.

Language:Jupyter NotebookGPL-3.07 10

Sperm_control_cohort_mosaicism

This repository collects pipelines, codes, and some intermediate results for the study of mosaic SNV/Indels for sperm, blood, and other samples of a control cohort.

Language:PythonGPL-3.06 1 1

Human_Inhibitory_Neurons

This repository contains codes and pipelines, as well as data used in the analysis of human inhibitory and excitatory neuronal clonal dynamics and lineage relationships, with cell-type-specific mosaic variant barcoding analysis (cMVBA).

Language:Jupyter NotebookGPL-3.04 20

MosaicBase

MosaicBase is a comprehensive knowledgebase for postzygotic mosaic variants from noncancer disease-related and healthy human individuals

GPL-3.03 10

PASM

Scripts for PASM, TAS/TASeq, and MPAS. We provided perl+R versions, python versions, and an extended snakemake version with all additional annotations. The scripts are useful for the calculation of variant allelic fractions for the validation and quantification of mosaic mutations.

Language:PythonGPL-3.03 10

Sperm_transmission_mosaicism

This repository collects pipelines, codes, and some intermediate results for the study of mosaic SNV/Indels for sperm, blood, saliva samples of a transmission genomic study.

Language:PythonGPL-3.03 10