HKU-BAL/Clair3

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

Language: Python - Size: 3.55 MB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 287 - Forks: 32

HKU-BAL/ClairS

ClairS - a deep-learning method for long-read somatic small variant calling

Language: Python - Size: 12.7 MB - Last synced at: 14 days ago - Pushed at: 15 days ago - Stars: 85 - Forks: 8

HKU-BAL/AutoPM3

Language: Python - Size: 463 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 4 - Forks: 0

HKU-BAL/Clair3-RNA

Clair3-RNA - a long-read small variant caller for RNA sequencing data

Language: Python - Size: 528 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 22 - Forks: 1

HKU-BAL/ClairS-TO

ClairS-TO - a deep-learning method for tumor-only somatic variant calling

Language: Python - Size: 9.89 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 59 - Forks: 4

HKU-BAL/ChromSeg

A framework for crossing-overlap chromosome segmentation

Language: Python - Size: 38.1 KB - Last synced at: 10 days ago - Pushed at: over 4 years ago - Stars: 7 - Forks: 1

HKU-BAL/ClusterV

ClusterV: finding HIV quasispecies and drug resistance from ONT sequencing data

Language: Python - Size: 125 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 11 - Forks: 0

HKU-BAL/TC-RENO

A tool to detect full length isoforms of RNA

Language: Python - Size: 159 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 3 - Forks: 3

HKU-BAL/Clair3-Nova

de novo variant calling in trio using Nanopore long-reads

Language: Python - Size: 2.76 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 8 - Forks: 0

HKU-BAL/megabox

A web platform for hosting up-to-date MEGAHIT assemblies of publicly available but challenging metagenome sequence data.

Language: CSS - Size: 21.5 KB - Last synced at: 5 months ago - Pushed at: over 9 years ago - Stars: 1 - Forks: 2

HKU-BAL/msdb-flask

Mirtronstructdb: A comprehensive database of mirtrons with predicted secondary structures

Language: HTML - Size: 71.3 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0

HKU-BAL/Governome

Governome - Towards a new standard in genomic data privacy: a realization of owner-governance

Language: Go - Size: 361 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 0

HKU-BAL/CellContrast

CellContrast: Reconstructing Spatial Relationships in Single-Cell RNA Sequencing Data via Deep Contrastive Learning

Language: Jupyter Notebook - Size: 1.01 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 0

HKU-BAL/Clair3-Trio

Clair3-Trio: variant calling in trio using Nanopore long-reads

Language: Python - Size: 2.74 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 12 - Forks: 1

HKU-BAL/ClusterV-Web

Language: C - Size: 18.3 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 0

HKU-BAL/Chromatin-Fiber-Imaging

Chromatin Fiber Imaging

Language: Python - Size: 233 KB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 1 - Forks: 0

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: C - Size: 51.5 MB - Last synced at: almost 2 years ago - Pushed at: about 3 years ago - Stars: 14 - Forks: 1

HKU-BAL/CONNET

CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning

Language: Python - Size: 15.3 MB - Last synced at: almost 2 years ago - Pushed at: over 2 years ago - Stars: 11 - Forks: 5

HKU-BAL/MegaPath

MegaPath: sensitive and rapid pathogen detection using metagenomic NGS data; MegaPath-Amplicon: filtering module for metagenomic amplicon data

Language: Java - Size: 23.2 MB - Last synced at: 10 days ago - Pushed at: over 3 years ago - Stars: 6 - Forks: 0

HKU-BAL/Clair3-MP

variant calling using with sequencing data from multiple platforms

Language: Python - Size: 657 KB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 1

HKU-BAL/Clair

Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling

Language: Python - Size: 1.01 MB - Last synced at: almost 2 years ago - Pushed at: almost 3 years ago - Stars: 102 - Forks: 12

HKU-BAL/ONT-TB-NF

Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.

Language: Nextflow - Size: 1.89 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0

HKU-BAL/CPG

Building a Chinese pan-genome of 486 individuals

Language: Python - Size: 12 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 10 - Forks: 3

HKU-BAL/Clairvoyante-PyTroch

Pytorch version of Clairvoyante

Language: Jupyter Notebook - Size: 238 MB - Last synced at: 10 days ago - Pushed at: over 6 years ago - Stars: 9 - Forks: 0

HKU-BAL/SENSV

A tool to detect structural variant

Language: C - Size: 154 MB - Last synced at: over 2 years ago - Pushed at: almost 3 years ago - Stars: 13 - Forks: 3

HKU-BAL/ECNano

A target captured medical exome ONT sequencing with amplicon variant calling workflow

Language: Python - Size: 42.9 MB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 5 - Forks: 1

HKU-BAL/AF-NS

Language: Python - Size: 28.3 KB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 1

HKU-BAL/HKG

Language: Shell - Size: 11.7 KB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

HKU-BAL/MegaGTA

HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs

Language: C++ - Size: 4.32 MB - Last synced at: over 1 year ago - Pushed at: almost 9 years ago - Stars: 17 - Forks: 4

HKU-BAL/UNCALLED

Raw nanopore signal mapper that enables real-time targeted sequencing

Language: C++ - Size: 5.2 MB - Last synced at: over 2 years ago - Pushed at: almost 5 years ago - Stars: 3 - Forks: 0

HKU-BAL/Translocator

Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long reads

Language: C++ - Size: 69.9 MB - Last synced at: over 2 years ago - Pushed at: over 5 years ago - Stars: 12 - Forks: 0

HKU-BAL/ncov19_cytosine_depletion

Language: Python - Size: 42 KB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0