shishenyxx

Xiaoxu Yang's starred repositories

the-art-of-command-line

Master the command line, in one page

151331 2838 250

HDMI-PI

我设计的一个HDMI转MIPI模块，可以用于驱动各种手机屏幕当显示器用。

Language:C5719 136 48

ShameCom

收集校招污点公司或组织，帮助学弟学妹避雷。互联网不曾遗忘！

MIT5565 122 53

scg_lib_structs

Collections of library structure and sequence of popular single cell genomic methods

Language:HTML404 30 12

ProjecTILs

Interpretation of cell states using reference single-cell maps

Language:RGPL-3.0234 9 83

SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.

Language:PythonBSD-2-Clause149 24 204

DeepBake

Baking Machine Learning into Great British Bake Off

Language:Jupyter NotebookGPL-2.071 80

MosaicForecast

A mosaic detecting software based on phasing and random forest

Language:PythonMIT60 25 36

SV2

Support Vector Structural Variation Genotyper

Language:Python58 6 30

DeepMosaic

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

Language:PythonNOASSERTION41 8 32

Paired-Tag

Analysis of Paired-Tag datasets

Language:C++MIT37 5 19

Paired-seq

Language:C++14 2 8

Adult_brain_somatic_mosaicism

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

Language:PythonGPL-3.014 20

MosaicHunter

A tool to detect postzygotic single-nucleotide mosaicism from unpaired, trio, or paired samples.

Language:JavaMIT11 9 12

MCD_mosaic

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

seqpipe

A framework for SEQuencing data analysis PIPElines.

Language:PerlMIT7 2 23

SISTR

Selection Inference on Short Tandem Repeats (SISTR): A method to measure negative selection at short tandem repeats

Language:Python6 1 1

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

All2

A tool for filtering variants from all2all comparison of multiple clones or single cells

Language:PythonMIT5 40

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

DeepCircle

Predict eccDNA based on deep learning models

Language:Python3 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