Awesome
Clair - Yet another deep neural network based variant caller
Contact: Ruibang Luo
Email: rbluo@cs.hku.hk
Introduction
This is Clair v1, which was made available in Jan 2019. Please visit v2, Nov 2019 for the latest version.
Clair is the successor of Clairvoyante.
Usage
git clone https://github.com/HKU-BAL/Clair.git
cd Clair
./clair.py
Models
Please download models from here.
| Folder | Tech | Sample used | Depth used |
|---|---|---|---|
| pacbio/rsii | PacBio RSII | HG001,2,3,4 | "Full depth of each sample" x {0.1,0.2,0.4,0.6,0.8,1.0} |
| pacbio/ccs | PacBio CCS 15k | HG002 | ~28-fold x {0.1, 0.2 ..., 0.9} |
| ont/r94 | ONT R9.4 (no flip-flop) | HG001 | ~37-fold x {0.1, 0.2 ..., 0.9} |
| ont/r94-flipflop | ONT R9.4 (flip-flop) | HG001 | ~150-fold x 0.7<sup>{0,1 ..., 9}</sup> |