qihaowei89's repositories
MuRaL
MuRaL is a deep learning framework for estimating single-nucleotide mutation rates across the genome.
numbat
Haplotype-aware CNV analysis from single-cell RNA-seq
pdfsam
PDFsam, a desktop application to split, merge, mix, rotate PDF files and extract pages
g2p-aggregator
Associations of genomic features, drugs and diseases
pori
Platform for Oncogenomic Reporting and Interpretation (PORI)
gcf-docker
Docker files for autmated buids at dockerhub
qihaowei89
Config files for my GitHub profile.
esquisse
RStudio add-in to make plots with ggplot2
crayon
🖍️ R package for colored terminal output
cnvkit
Copy number variant detection from targeted DNA sequencing
neat-genreads
NEAT read simulation tools
benchmarking-tools
Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
Nextflow_cheatsheet
Useful tips to get started with Nextflow
MetNormalizer
MetNormalizer is used to normalize large scale metabolomics data.
wfpm
WorkFlow Package Manager
microbiome_helper
A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
cronR
A simple R package for managing your cron jobs.
amp_phase1_ra
:ear_of_rice: Zhang, et al, Nature Immunology, 2019. Use single-cell transcriptomics and proteomics to study autoimmune diseases.
GeneFuse
Gene fusion detection and visualization
scPred
scPred package for cell type prediction from scRNA-seq data
HIV_DeepLearning
HIV Drug Resistance Prediction with Deep Learning
SURPI-plus-dist
This repository houses the code to run SURPI+, a rapid computational pipeline for comprehensive identification of pathogens from clinical metagenomic sequence data. Please download SURPI+ software from here.
amp_phase1_ra_viewer
🌻 View single-cell RNA-seq and mass cytometry data in synovial tissues from patients with RA or OA.