Pinned Repositories
Centromics
Centromics: visualing centromeres with multiple omics data
degeneracy
Get 0-fold and 4-fold degeneracy sites
minimap2
A fast pairwise aligner for genomic and spliced nucleotide sequences
OGAP
OGAP: Organelle Genome Annotation Pipeline
orthoindex
Robust identification of orthologous synteny with the Orthology Index
REPcluster
Clustering repeat sequences with kmer-based distance
RunCmdsMP
Run system commands parallelly
subgenome_phasing_example
An Example of Subgenome Phasing for Complex Allopolyploidy
SubPhaser
Phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.
TEsorter
TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes
zhangrengang's Repositories
zhangrengang/TEsorter
TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes
zhangrengang/SubPhaser
Phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.
zhangrengang/Centromics
Centromics: visualing centromeres with multiple omics data
zhangrengang/OGAP
OGAP: Organelle Genome Annotation Pipeline
zhangrengang/subgenome_phasing_example
An Example of Subgenome Phasing for Complex Allopolyploidy
zhangrengang/degeneracy
Get 0-fold and 4-fold degeneracy sites
zhangrengang/orthoindex
Robust identification of orthologous synteny with the Orthology Index
zhangrengang/RunCmdsMP
Run system commands parallelly
zhangrengang/REPcluster
Clustering repeat sequences with kmer-based distance
zhangrengang/minimap2
A fast pairwise aligner for genomic and spliced nucleotide sequences
zhangrengang/phytop
Visualing species tree from ASTRAL with gene tree discordance
zhangrengang/redundans
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
zhangrengang/unanimity
Consensus library and applications
zhangrengang/3d-dna
3D de novo assembly (3D DNA) pipeline
zhangrengang/ASTRAL
Accurate Species TRee ALgorithm
zhangrengang/cebai
zhangrengang/circlator
A tool to circularize genome assemblies
zhangrengang/evolution_example
Example for evlutionary analyses with Orthology Index
zhangrengang/fbpolisher
polishing noisy genome assembly with short reads of high-quality
zhangrengang/KMC
Fast and frugal disk based k-mer counter
zhangrengang/matplotlib
matplotlib: plotting with Python
zhangrengang/mgra
zhangrengang/MicrobePhylogenomics
A pipeline to construct phylogenomic tree for microbial genomes
zhangrengang/mysql2sqlite
Converts MySQL dump to SQLite3 compatible dump
zhangrengang/NextPolish
Fast and accurately polish the genome generated by noisy long reads.
zhangrengang/oak
zhangrengang/scripts
zhangrengang/smartdenovo
Ultra-fast de novo assembler using long noisy reads
zhangrengang/syri
Synteny and Rearrangement Identifier
zhangrengang/Unicycler
hybrid assembly pipeline for bacterial genomes