HKUCS Bioinformatics Algorithms and Core Technology Research Laboratory

Research group led by Ruibang Luo in Computer Science, The University of Hong Kong

Hong Kong

Pinned Repositories

Clair
Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
Language:Python103 6 5312
Clair3
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
Language:Python252 11 31031
Clair3-RNA
Clair3-RNA - a long-read small variant caller for RNA sequencing data
Language:Python19 4 41
Clair3-Trio
Clair3-Trio: variant calling in trio using Nanopore long-reads
Language:Python14 5 151
ClairS
ClairS - a deep-learning method for long-read somatic small variant calling
Language:Python78 6 358
ClairS-TO
ClairS-TO - a deep-learning method for tumor-only somatic variant calling
Language:Python56 3 174
MegaGTA
HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs
Language:C++17 7 14
MegaPath-Nano
MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read Metagenomics; MegaPath-Nano-Amplicon: filtering module for metagenomic amplicon data
Language:C14 6 11
SENSV
A tool to detect structural variant
Language:C18 5 53
Translocator
Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long reads
Language:C++13 5 10

HKUCS Bioinformatics Algorithms and Core Technology Research Laboratory's Repositories

HKU-BAL/Clair3
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
Language:Python252 11 31031
HKU-BAL/Clair
Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
Language:Python103 6 5312
HKU-BAL/ClairS
ClairS - a deep-learning method for long-read somatic small variant calling
Language:Python78 6 358
HKU-BAL/ClairS-TO
ClairS-TO - a deep-learning method for tumor-only somatic variant calling
Language:Python56 3 174
HKU-BAL/Clair3-RNA
Clair3-RNA - a long-read small variant caller for RNA sequencing data
Language:Python19 4 41
HKU-BAL/SENSV
A tool to detect structural variant
Language:C18 5 53
HKU-BAL/Clair3-Trio
Clair3-Trio: variant calling in trio using Nanopore long-reads
Language:Python14 5 151
HKU-BAL/MegaPath-Nano
MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read Metagenomics; MegaPath-Nano-Amplicon: filtering module for metagenomic amplicon data
Language:C14 6 11
HKU-BAL/Translocator
Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long reads
Language:C++13 5 10
HKU-BAL/CONNET
CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning
Language:Python12 4 86
HKU-BAL/CPG
Building a Chinese pan-genome of 486 individuals
Language:Python12 5 15
HKU-BAL/ClusterV
ClusterV: finding HIV quasispecies and drug resistance from ONT sequencing data
Language:Python11 3 40
HKU-BAL/Clair3-Nova
de novo variant calling in trio using Nanopore long-reads
Language:Python9 3 50
HKU-BAL/Clairvoyante-PyTroch
Pytorch version of Clairvoyante
Language:Jupyter Notebook9 4 10
HKU-BAL/ChromSeg
A framework for crossing-overlap chromosome segmentation
Language:Python8 5 01
HKU-BAL/ECNano
A target captured medical exome ONT sequencing with amplicon variant calling workflow
Language:Python6 5 01
HKU-BAL/MegaPath
MegaPath: sensitive and rapid pathogen detection using metagenomic NGS data; MegaPath-Amplicon: filtering module for metagenomic amplicon data
Language:Java6 7 30
HKU-BAL/CellContrast
CellContrast: Reconstructing Spatial Relationships in Single-Cell RNA Sequencing Data via Deep Contrastive Learning
Language:Jupyter Notebook5 3 00
HKU-BAL/ONT-TB-NF
Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.
Language:Nextflow5 3 11
HKU-BAL/Clair3-MP
variant calling using with sequencing data from multiple platforms
Language:Python4 2 42
HKU-BAL/ClusterV-Web
Language:C3 2 0
HKU-BAL/Governome
Governome - Towards a new standard in genomic data privacy: a realization of owner-governance
Language:Go3 2 0
HKU-BAL/TC-RENO
A tool to detect full length isoforms of RNA
Language:Python3 4 03
HKU-BAL/UNCALLED
Raw nanopore signal mapper that enables real-time targeted sequencing
Language:C++3 4 0
HKU-BAL/AF-NS
Language:Python1 2 01
HKU-BAL/AutoPM3
Language:Python1 2 00
HKU-BAL/Chromatin-Fiber-Imaging
Chromatin Fiber Imaging
Language:Python1 4 00
HKU-BAL/HKG
Language:Shell2 0
HKU-BAL/msdb-flask
Mirtronstructdb: A comprehensive database of mirtrons with predicted secondary structures
Language:HTML1 0
HKU-BAL/ncov19_cytosine_depletion
Language:Python4 0