Pinned Repositories
ABC-Enhancer-Gene-Prediction
Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
coloncancer
for processing tcga data
cosmic
cosmic category to genomic format
d2genes
datasets to genes
GCAP
DNase I seq QC pipeline
histonerp
a regulatory potential c implementation for histone modification ChIP-seq and DNase-seq
lisa
epigenome analysis to rank transcription factors
pyrovelocity
Probabilistic model of RNA velocity
rms_analysis
single cell data analysis for rms
TFImpute
backup code from Mercurial
qinqian's Repositories
qinqian/histonerp
a regulatory potential c implementation for histone modification ChIP-seq and DNase-seq
qinqian/ABC-Enhancer-Gene-Prediction
Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
qinqian/depmap_omics
What you need to process the Quarterly DepMap-Omics releases from Terra
qinqian/math
š§® Path to a free self-taught education in Mathematics!
qinqian/pyro
Deep universal probabilistic programming with Python and PyTorch
qinqian/pyrovelocity
Probabilistic model of RNA velocity
qinqian/chirho
An experimental language for causal reasoning
qinqian/ctat-mutations
Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19
qinqian/CTAT-VirusIntegrationFinder
qinqian/effectful
An experimental library for metaprogramming with algebraic effects and handlers
qinqian/FLAIR-fusion
qinqian/gcp-for-bioinformatics
GCP for Bioinformatics Researchers
qinqian/gffcompare
classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
qinqian/hifiasm
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
qinqian/linux
Linux kernel source tree
qinqian/llama2.c
Inference Llama 2 in one file of pure C
qinqian/minda
qinqian/MorphoGAM
qinqian/pangene
WIP: Constructing a pangenome gene graph
qinqian/PhyloVelo
PhyloVelo, Phylogeny-based transcriptomic velocity of single cells
qinqian/pml2-book
Probabilistic Machine Learning: Advanced Topics
qinqian/proseg
Probabilistic cell segmentation for in situ spatial transcriptomics
qinqian/qinqian.github.io
qinqian/Rust
All Algorithms implemented in Rust
qinqian/scikit-llm
Seamlessly integrate LLMs into scikit-learn.
qinqian/SCOTIA
qinqian/Sniffles
Structural variation caller using third generation sequencing
qinqian/squidpy
Spatial Single Cell Analysis in Python
qinqian/SUPPA
SUPPA: Fast quantification of splicing and differential splicing
qinqian/vcf2maf
Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms