Haibao Tang

jcvi. Python library to facilitate genome assembly, annotation, and comparative genomics

goatools. Python library to handle Gene Ontology (GO) terms

bio-pipeline. My collection of light bioinformatics analysis pipelines for specific tasks

quota-alignment. Guided synteny alignment between duplicated genomes (within specified quota constraint)

allhic. Genome scaffolding based on HiC data in heterozygous and high ploidy genomes

treecut. Find nodes in hierarchical clustering that are statistically significant

mcscan. Command-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format

trimReads. Utility programs to trim or sort Illumina reads with adapter sequences

pybind11_log. A bridge from C++ to Python logging

klassify. Classify chimeric reads based on unique kmer contents

rust-wfa2. Rust binding for WFA2-lib

Splithunter. Identify split reads in given chromosomal regions

positional-history. Internal scripts to run the pipeline to determine the transpositions of A. thaliana genes with respect to multiple outgroups

jcvi-bin. Collection of third-party softwares used in jcvi library

dna-pygments. Javascript code to highlight features in biological sequences

dotfiles. bashrc, vimrc, gitconfig and various other configuration files

pgdd. Dynamic contents within the plant genome duplication database

nannou-playground. Animation projects that leverage the excellent nannou library

tanghaibao.