shengxinzhuan's repositories
Extract_Consensus_Sequences_of_Genes_from_BAM_parallel
This is a series of scripts on the rapid construction of target interval consensus sequences from bam files and the rapid construction of phylogenetic trees as well as visualisations
easy_psmc_plot
this script is aim to plot the PSMC result by an easy way
deepconsensus
DeepConsensus uses gap-aware sequence transformers to correct errors in Pacific Biosciences (PacBio) Circular Consensus Sequencing (CCS) data.
bioinformatics_scripts
Some scripts to perform general bioinformatics functions
delly
DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
IntroBlocker
The IntroBlocker ancestry inference algorithm
nPhase
Ploidy agnostic phasing pipeline and algorithm
octopus
Bayesian haplotype-based mutation calling
shengxinzhuan.github.io
bioinfo
TGG
tomato graph pangenome
THEx
Tree House Explorer (THEx) is a novel genome browser for exploring phylogenetic and genomic data in one succinct place.
transanno
accurate LiftOver tool for new genome assemblies
tree_utilities
Simulate gene trees given a newick species tree with branch lengths in coalescent units.
updog
Flexible Genotyping of Polyploids using Next Generation Sequencing Data
Work_flow_of_population_genetics
整理常用的群体遗传学分析流程和脚本