qianche's repositories
NGSpipe2go
a set of NGS pipelines
fiveMinuteStats
A repo of short "vignettes" illustrating statistical concepts
GenomeAnnotation
Best practices and workflow for genome annotation
admix-kit
Toolkit for analyzing genetics data from admixed populations
bioinformatics-workbook
Bioinformatics Workbook repository
dpdispatcher
generate HPC scheduler systems jobs input scripts and submit these scripts to HPC systems and poke until they finish
DRPPM
Integrated software for processing omics data.
Efficient_Python_tricks_and_tools_for_data_scientists
Efficient Python Tricks and Tools for Data Scientists
free_r_tips
Free R-Tips is a FREE Newsletter provided by Business Science. It comes with bite-sized code tutorials every week.
gaiaAssociation
gaiaAssociation is a tool to detect the cell specific enrichment of loci in regulatory regions through the sum of non-identical binomials
getting-started-with-genomics-tools-and-resources
Unix, R and python tools for genomics and data science
gwas-utils
Collection of tools and scripts to manage GWAS Catalog related infrastructure.
gwaslab
A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/
GWASpy
GWAS QC, PCA, haplotype phasing, genotype imputation
knowledgebase
recipes that save time
learning_bam_file
Learning the Sequence Alignment/Map format
Pan_Ath
Code for Article "A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species range"
python-cheatsheet
Comprehensive Python Cheatsheet
python_convert
A collection of various utilities for GWAS summary statistics
RNA-seek
A comprehensive quality-control and quantification RNA-seq pipeline
snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
snpsea
:bar_chart: Identify cell types and pathways affected by genetic risk loci.
sumher_rs
Heritability and genetic correlation from GWAS. Wrapper around LDAK for fast parallel computation
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.
truvari
Structural variant toolkit for VCFs
tutorial-template
Template for the Read the Docs tutorial
YouTube-Tutorials
Code associated with YouTube Statistics tutorials.