Rongting Huang's repositories
ReadingNotes
你今天读论文了吗
xclone-data
XCLONE DATA
CNV_calling_Benchmark
Benchmarking records for scRNA-seq CNV detection.
cellcutter
Create thumbnails of cells in a given image.
Alleloscope
Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separately or in combination). Allele-specific estimation allows for the more accurate delineation of copy number states and the detection of subclonal copy-neutral loss-of-heterozygosity and mirrored CNA events. On scATAC-seq data, Alleloscope allows integrative multi-omic analysis of allele-specific copy number and chromatin accessibility for the same cell.
trisicell
Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data
glmpca-py
generalized principal component analysis (GLM-PCA) implemented in python
XClone-test
Inference of clonal Copy Number Variation in single cells
RT_CodeLib
CodeLib for daily usage.
SnapATAC2
Single-cell epigenomics analysis tools
chisel
CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links
Rongtingting.github.io
Rongting's pages
academic-kickstart
Easily create a beautiful website using Academic and Hugo
vireo
Demultiplexing pooled scRNA-seq data with or without genotype reference
scvelo
RNA Velocity generalized through dynamical modeling
awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
Visualization
Source or useful info for visualization and presentation.
Single-cell-datasets
Collection of publicly available single-cell datasets [bias: Useful transcriptomes]
scQTLib
single-cell quantitative trait (locus) analysis library
TensorFlow-Bayes
Examples of TensorFlow for Bayesian inference
HoneyBADGER
HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
machine-learning-notes
My continuously updated Machine Learning, Probabilistic Models and Deep Learning notes and demos (2000+ slides) 我不间断更新的机器学习，概率模型和深度学习的讲义(2000+页)和视频链接
hilearn
A small library of machine learning methods and data visualization plots