Pinned Repositories
12306
12306智能刷票，订票
3d-dna
3D de novo assembly (3D DNA) pipeline
A-pro
ASTRAL for PaRalogs and Orthologs
AGAT
Another Gtf/Gff Analysis Toolkit
agc
Assembled Genomes Compressor
AGWG-merge
ArchaicSeeker2.0
ArchaicSeeker is a series of software for detecting archaic introgression sequences and reconstructing introgression history. The latest version of this series, ArchaicSeeker 2.0, has the following three notable improvements compared with the original version of this software. First, it can automatically determine the boundary of each introgressed sequence. Next, it is capable of tracing both known and unknown ancestral sources of a given introgressed sequence. Finally, it has the ability to reconstruct the introgression history with more sophisticated introgression models.
Chinese_indicine_pan-genome_project_scripts_and_piplines
Chinese indicine cattle pan-genome project scripts and piplines
DESCHRAMBLER
selscan
Haplotype based scans for selection
Xuelei-Dai's Repositories
Xuelei-Dai/Chinese_indicine_pan-genome_project_scripts_and_piplines
Chinese indicine cattle pan-genome project scripts and piplines
Xuelei-Dai/AGAT
Another Gtf/Gff Analysis Toolkit
Xuelei-Dai/agc
Assembled Genomes Compressor
Xuelei-Dai/AmpliconArchitect
Identify one or more connected, focally amplified genomic regions to elucidate the architecture of focal amplifications such as ecDNA.
Xuelei-Dai/bioscripts
store some scripts using in biology and bioinformatics
Xuelei-Dai/EMMA
an ensemble usage of MAFFT-linsi --add on large datasets
Xuelei-Dai/gapless
Gapless provides combined scaffolding, gap-closing and assembly correction with long reads
Xuelei-Dai/GFA-spec
Graphical Fragment Assembly (GFA) Format Specification
Xuelei-Dai/gggenes
➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2
Xuelei-Dai/HipSTR
Genotype and phase short tandem repeats using Illumina whole-genome sequencing data
Xuelei-Dai/Liftoff
An accurate GFF3/GTF lift over pipeline
Xuelei-Dai/Mash
Fast genome and metagenome distance estimation using MinHash
Xuelei-Dai/MEGAnE
MEGAnE
Xuelei-Dai/MitoHiFi
Find, circularise and annotate mitogenome from PacBio assemblies
Xuelei-Dai/MitoZ
MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
Xuelei-Dai/ModDotPlot
Xuelei-Dai/msprime
Simulate genealogical trees and genomic sequence data using population genetic models
Xuelei-Dai/panacus
Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
Xuelei-Dai/pangenie
Pangenome-based genome inference
Xuelei-Dai/pgr-tk
PGR-TK: Pangenome Research Tool Kit
Xuelei-Dai/prokka
:zap: :aquarius: Rapid prokaryotic genome annotation
Xuelei-Dai/pychopper
cDNA read preprocessing
Xuelei-Dai/TALON
Technology agnostic long read analysis pipeline for transcriptomes
Xuelei-Dai/tama
Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
Xuelei-Dai/TGS-GapCloser
A gap-closing software tool that uses long reads to enhance genome assembly.
Xuelei-Dai/VCF2Dis
VCF2Dis: A new simple and efficient software to calculate p-distance matrix based Variant Call Format
Xuelei-Dai/verkko
Xuelei-Dai/wf-isoforms
Xuelei-Dai/wf-transcriptomes
Xuelei-Dai/yahs
Yet another Hi-C scaffolding tool