xiahui625649's repositories
Plant-LncRNA-pipline
植物LncRNA分析工具
d2l-zh-
《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被70多个国家的500多所大学用于教学。
topr
topr is a collection of plotting functions for visualizing and exploring genetic association results. Association results from multiple phenotypes can be viewed simultaneously, over the entire genome (Manhattan plot) or in the more detailed regional view.
OrdinalGWAS.jl
Genome-wide association studies (GWAS) for ordered categorical phenotypes using proportional odds model or ordred Probit model.
introduction_to_gwas
各种不同GWAS模型脚本
pannagram
多基因组比对
permGWAS
Efficient Permutation-based GWAS for Normal and Skewed Phenotypic Distributions
GMMAT
GWAS基于广义混合线性模型Generalized linear Mixed Model Association Tests
RNAGlass
Identify and quantify mobile mRNAs in grafted plants
wekits
SNP和SSR引物批量设计Wheat Bioinformatic Toolkits
TO-GCN
时间序列基因共表达网络Pipeline of time-ordered gene coexpression network (TO-GCN) construction from three-dimensional (gene expression, condition, and time) data
GenomicSEM
R-package for structural equation modeling based on GWAS summary data
BCClong
贝叶斯一致性聚类（重复抽样多次聚类，评估聚类结果可靠性），包括各种类型数据，如纵向性状等
MingPCACluster
EM高斯混合模型聚类
TSDFGS
Training set determination for genomic selection.
gwsem
Genome-wide Structural Equation Modeling
lfelipe-ferrao.github.io
Genetic Data Analysis for Plant and Animal Breeding
ClusterGVis
One-step to Cluster and Visualize Gene Expression Matrix基因表达趋势分析和富集分析
blupADC
blupADC:An useful tool for animal and plant breeding
workshop-tidyverse
Workshop: Using R/tidyverse to analyze & visualize gapminder/processed transcriptomics data!
rTASSEL
R front-end for TASSEL
CFVisual
绘制基因家族中Motif和基因结构一张图
growthPheno
生长性状
RRM-and-FAMM-asreml-two-step
随机回归模型在纵向性状中应用 contains the R codes to model the genotype by harvest interaction using random regression models (RRM) and Factor Analytic Mixed Model (FAMM)
gradient-forest-for-delineating-seed-and-breeding-zones
This is the code for manuscript "Using landscape genomics to delineate seed and breeding zones for lodgepole pine" by Yu et al., 2022, New Phytologist