yiguiz Goto Github PK

bayesr

Bayesian hierarchical model for complex trait analysis

blog_installing_packages

Blogpost about installing packages and getting package dependencies

blupf90tutorialstandard

A tutorial of the BLUPF90 family programs

c_elegans_drnaseq_analysis

Scripts used in the analysis of C elegans dRNAseq data

camgwas

Cameroon Malaria GWAS

chessrevisions

chess revision scripts and notebooks

coursera-ml-andrewng-notes

吴恩达老师的机器学习课程个人笔记

crossmap

CrossMap is a python program to lift over genome coordinates from one genome version to another.

fasta_snp_extraction

Extract a section of a reference genome flanking an input locus with SNPs.

find_circ

tools to find circRNAs in RNA-seq data

flep_seq2_polya_analysis

genomics_machinelearning

Predicting tolerance to stressors based on DNA sequences in Arabidopsis

gmat

Genomic Multivariate Analysis Tools

gtex_v9_data_analysis

Analyze GTEx (V9) Oxford Nanopore long-read RNA-Seq Transcript Quantification Data

gwas-pipline

the pipline of Genome-Wide Association Studies

illumina-array-protocols

processing illumina SNP arrays

lepto_transcriptome_ont_cdna

lorals_paper_code

ml-for-genomics

Lists open source machine learning projects solving genomic or molecular biology problems.

na12878

Data and analysis for NA12878 genome on nanopore

nadiv

R package that constructs (non)additive genetic relationship matrices, and their inverses, from a pedigree to be used in linear mixed effect models (A.K.A. the 'animal model').

neuron

During brain development, neural stem cells (NSCs) undergo multiple fate-switches to generate various neuronal subtypes and glial cells, exhibiting distinct transcriptomic profiles at different stages. Despite the extensive transcriptomic characterization of human and mouse brain cells at bulk and single-cell levels, full-length transcriptomic data

ont_tutorial_transcriptome

A bioinformatics tutorial demonstrating the application of long read cDNA sequence data for the identification of differentially expressed genes and transcripts

phragmites-australis-transcriptome-optimal-assembly

Workflow and scripts used for the assembly of the Phragmites australis transcriptome.

plot

Just draw onec

processing-kit

Some self-written scripts used for pre-processing for graduate projects

python-animal-td-model

A BLUPF90 wrapper written in Python implementing the Animal Model, as well as Test-Day Model for estimating breeding values (EBVs)

pythondemo

虾神的Python示例代码库

rd-imputation-accuracy

Phasing and genotype Imputation comparison. Have been evaluated: BEAGLE 5.2, EAGLE 2.4.1, SHAPEIT 4, MINIMAC 4, IMPUTE 5, using accuracy metrics like: IQS(Imputation Quality score), r2 (Pearson correlation), Concordance.

scripts

Collection of various scripts