BAL (@HKU-BAL)
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HKU-BAL

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Top repositories

1

Clair3

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
Python
218
star
2

Clair

Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling
Python
102
star
3

ClairS

ClairS - a deep-learning method for long-read somatic small variant calling
Python
47
star
4

ClairS-TO

ClairS-TO - a deep-learning method for tumor-only somatic SNV calling
Python
26
star
5

SENSV

A tool to detect structural variant
C
18
star
6

MegaGTA

HMM-guided metagenomic gene-targeted assembler using iterative de Bruijn graphs
C++
17
star
7

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
C
15
star
8

Clair3-Trio

Clair3-Trio: variant calling in trio using Nanopore long-reads
Python
14
star
9

Translocator

Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long reads
C++
13
star
10

CONNET

CONNET: Accurate Genome Consensus in Assembling Nanopore Sequencing Data via Deep Learning
Python
12
star
11

CPG

Building a Chinese pan-genome of 486 individuals
Python
11
star
12

Clairvoyante-PyTroch

Pytorch version of Clairvoyante
Jupyter Notebook
9
star
13

ClusterV

ClusterV: finding HIV quasispecies and drug resistance from ONT sequencing data
Python
7
star
14

ChromSeg

A framework for crossing-overlap chromosome segmentation
Python
7
star
15

ECNano

A target captured medical exome ONT sequencing with amplicon variant calling workflow
Python
6
star
16

Clair3-RNA

Clair3-RNA - a long-read small variant caller for RNA sequencing data
Python
6
star
17

MegaPath

MegaPath: sensitive and rapid pathogen detection using metagenomic NGS data; MegaPath-Amplicon: filtering module for metagenomic amplicon data
Java
6
star
18

ONT-TB-NF

Comprehensive pipeline for detection of TB from ONT adaptive sequencing and amplicon data.
Nextflow
5
star
19

Clair3-MP

variant calling using with sequencing data from multiple platforms
Python
4
star
20

UNCALLED

Raw nanopore signal mapper that enables real-time targeted sequencing
C++
3
star
21

ClusterV-Web

C
3
star
22

TC-RENO

A tool to detect full length isoforms of RNA
Python
3
star
23

CellContrast

CellContrast: Reconstructing Spatial Relationships in Single-Cell RNA Sequencing Data via Deep Contrastive Learning
Jupyter Notebook
3
star
24

Chromatin-Fiber-Imaging

Chromatin Fiber Imaging
Python
1
star