youpu-chen Goto Github PK

clash-for-windows

Clash for Windows使用教程，Clash-for-Windows配置，Clash-for-Windows说明，Clash-for-Windows

cpc-graph-based-ngs-pipeline

A graph-based pipeline used to call/genotype snvs/indels/SVs from NGS data

deeplearning

深度学习入门教程, 优秀文章, Deep Learning Tutorial

deeplearning-biology

A list of deep learning implementations in biology

eagle

Enhanced Artificial Genome Engine: next generation sequencing reads simulator

from-python-to-numpy

An open-access book on numpy vectorization techniques, Nicolas P. Rougier, 2017

fstcalculator

For the calculation of FST

gene_lists

1) List of gene lists for genomic analyses. 2) for disease-related analysis

goatools

Python library to handle Gene Ontology (GO) terms

grideablog

Youpu's blog by Gridea

gwaslab

A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/

hgv_modules

Teaching modules for Human Genome Variation Lab.

hpp_production_workflows

WDL’s and Dockerfiles for assembly QC process

htslib

C library for high-throughput sequencing data formats

intronphaser

Python scripts that getting ortholog EPIC sequences for phylogenomic analysis.

jcvi

Python library to facilitate genome assembly, annotation, and comparative genomics

ldsc

LD Score Regression (LDSC)

lobstr-code

lobSTR: a short tandem repeat profiler for next generation sequencing data

mergevcf

to merge multiple VCF

mgsea

modified gene set enrichment analysis (with a fuzzy ranked gene list)

myscripts

Youpu's scripts of daily bioinformatic analysis and period project code.

pangenome_vcf_postprocess

A simple pipeline to process the VCF deconstructed from the VG pangenome graph

pangpt

A Transformer for Pangenome data

panpop

Application of pan-genome for population

pggsvpipeline

popgen-notes

Population genetics notes

raincloudplots

Code and tutorials to visualise your data that is both beautiful *and* statistically valid

scantools

Collection of tools for selection analysis of genomic data and a wrapper for job submission on slurm cluster

scantools_protevol

Collection of tools for selection analysis of genomic data and candidate gene pathways modified from (https://github.com/pmonnahan/ScanTools) and a wrapper for job submission on PBS Pro cluster

sds

R code to compute the Singleton Density Score (SDS)