Pinned Repositories
atac_dnase_pipelines
ATAC-seq and DNase-seq processing pipeline
Bis-tools
A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clustering: alignWigToBed; )
cfDNA
Analysis of epigenetic signals captured by fragmentation patterns of cell-free DNA
cgmaptools
toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR
cisTopic
cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
cottonMNase-seq
Data analysis
DSS
FuChouMethyl
Methyl Pipeline
hans.github.io
isoSeq3_test
A simple test report for isoSeq3 of PacificBiosciences
hmyh1202's Repositories
hmyh1202/cgmaptools
toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR
hmyh1202/FuChouMethyl
Methyl Pipeline
hmyh1202/hans.github.io
hmyh1202/split_alignment
Seperate ma&fa source reads from aligned BAM using snpSplit tools
hmyh1202/useDocker
Dockerfile
hmyh1202/100-Days-Of-ML-Code
100-Days-Of-ML-Code中文版
hmyh1202/BGI-Full-Length-RNA-Analysis-Pipeline
Full-Length RNA Analysis pipeline developted by BGI RD group.
hmyh1202/bustools
Tools for working with BUS files
hmyh1202/Cassiopeia
A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
hmyh1202/DMRichR
A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)
hmyh1202/handson-ml2
A series of Jupyter notebooks that walk you through the fundamentals of Machine Learning and Deep Learning in Python using Scikit-Learn, Keras and TensorFlow 2.
hmyh1202/haplotyped-methylome
Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
hmyh1202/Longbow
PacBio library for at most 15 linked segements
hmyh1202/machine-learning-practice
hmyh1202/MethHaplo
allele specific DNA methylation haplotype region
hmyh1202/methpipe
A pipeline for analyzing DNA methylation data from bisulfite sequencing.
hmyh1202/MethylNet
Modular framework for deep learning predictions on methylation data.
hmyh1202/nanoNOMe
nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis
hmyh1202/ngmlr
NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
hmyh1202/samplot
Plot structural variant signals from many BAMs and CRAMs
hmyh1202/scarHRD
hmyh1202/scATAC-benchmarking
Benchmarking computational single cell ATAC-seq methods
hmyh1202/SCENIC
SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
hmyh1202/SparK_plot
Publication quality NGS track plotting
hmyh1202/SUPPA
SUPPA2: Fast quantification of differential splicing
hmyh1202/TFEA
Transcription Factor Enrichment Analysis
hmyh1202/TOBIAS
Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
hmyh1202/WGBS
A Whole-genome Bisulfite Sequencing(WGBS) pipline
hmyh1202/wiki
wiki docs
hmyh1202/workflows
Semi-automated Bash workflows for epigenomic analyses: RNA-seq, ChIP-seq, ATAC-seq, etc.