Young Cho/KRIBB's repositories
cactus
Official home of genome aligner based upon notion of Cactus graphs
Setaria-pan-genome
Here, we de novo assembled 110 representative Setaria accessions from a worldwide collected 1,844 variteies, and performed pan-/graph- genome studies, as well as demographic and genetic studies of Setaria.
quast
Genome assembly evaluation tool
hpp_production_workflows
WDL’s and Dockerfiles for assembly QC process
HiFiCNV
Copy number variant caller and depth visualization utility for PacBio HiFi reads
pggb
the pangenome graph builder
RECOORD-database
RECOORD is a recalculated coordinate database of over 500 proteins from the Protein Data Bank (PDB) using state-of-the-art methods based on CNS and CYANA1. The nuclear magnetic resonance (NMR) solution structures of these proteins were recalculated, and curated restraints were obtained from the BioMagResBank FRED database.
canu
A single molecule sequence assembler for genomes large and small.
medaka
Sequence correction provided by ONT Research
Filtlong
quality filtering tool for long reads
Pan-cancer-analysis
Reconstructing the immunosenescence core pathway reveals global characteristics in pan-caner
yak
Yet another k-mer analyzer
transformerCPI2.0
Sequence-to-drug concept adds a perspective on drug design. It can serve as an alternative method to SBDD, particularly for proteins that do not yet have high-quality 3D structures available.
NextDenovo
Fast and accurate de novo assembler for long reads
EvoEF2
a fast and accurate physical energy function extended from EvoEF for protein sequence design
GALA
Long-reads Gap-free Chromosome-scale Assembler
LRSDAY
LRSDAY: Long-read Sequencing Data Analysis for Yeasts
ConsDB
A Python tool for interfacing with large variant databases and performing consensus genome operations.
long-read-sequencing-pipeline
A Cloud Pipeline to Analyze Long Read Sequencing Data from Oxford Nanopore and PacBio Sequencers
EnCurv
Tools for maintaining predefined membrane curvature in MD simulations
Inspector
A tool for evaluating long-read de novo assembly results
2020-Genome_Assembly_Workshop
Explore the world of genome assembly and gain an understanding of the power and pitfalls of sequencing technologies and assembly techniques.
toolset
MMTSB Tool Set
IHM-dictionary
📖 mmCIF support for hybrid/integrative models
longshot
diploid SNV caller for error-prone reads