BoWangXJTU's repositories
3d-dna
3D de novo assembly (3D DNA) pipeline
Bioinformatics-with-Python-Cookbook-Second-Edition
Bioinformatics with Python Cookbook Second Edition, published by Packt
CHM13
The complete sequence of a human genome
CMplot
đź“Š Circular and Rectangular Manhattan Plot
Col-CEN
Resources for the Col-CEN reference genome assemblies
datasets
Datasets generated by our lab.
deep_learning_object_detection
A paper list of object detection using deep learning.
DupGen_finder
A pipeline used to identify different modes of duplicated gene pairs
esATAC
Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis
flair
Full-Length Alternative Isoform analysis of RNA
fp-growth
Python implementation of the Frequent Pattern Growth algorithm
HiC-Pro
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
HiCtrans
HiCtrans is a pipeline to call translocations from Hi-C data
Juicebox
Visualization and analysis software for Hi-C data -
methccs
Detecting DNA methylation from PacBio CCS reads
mmdetection
OpenMMLab Detection Toolbox and Benchmark
Multi_scale_evolution
Multi-scale evolution analysis of with aid of protein 3D structures for 332 different yeast species plus 11 fungal species.
NextDenovo
Fast and accurate de novo assembler for third generation sequencing (TGS) reads
polymorphology
Analyze genome-wide distributions of polymorphisms in relation to gene features
PRINGO
Proteomic Information Navigated Genomic Outlook (PRINGO), which is a set of custom R scripts, is for visualisation of genomic features. PRINGO combines results from Secretome prediction pipeline (INRAE Nancy, France), genome stats, and other pipelines including Transposon Identification Nominative Genome Overview (TINGO; Morin et al. 2019).
py
Repository to store sample python programs for python learning
pyGenomeTracks
python module to plot beautiful and highly customizable genome browser tracks
SALSA
SALSA: A tool to scaffold long read assemblies with Hi-C data
Scripts_for_GB
The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".
shasta
De novo assembly from Oxford Nanopore reads.