MinCall | MinION end2end convolutional deep learning basecaller (CROSBI ID 656824)
Prilog sa skupa u zborniku | sažetak izlaganja sa skupa | međunarodna recenzija
Podaci o odgovornosti
Miculinić, Neven ; Ratković, Marko ; Šikić, Mile
engleski
MinCall | MinION end2end convolutional deep learning basecaller
The Oxford Nanopore Technologies's MinION is the first portable DNA sequencing device. It is capable of producing long reads, over 100 kBp were reported. However, it has significantly higher error rate than other methods. In this study, we present MinCall, an end2end basecaller model for the MinION. The model is based on deep learning and uses convolutional neural networks (CNN) in its implementation. For extra performance, it uses cutting edge deep learning techniques and architectures, batch normalization and Connectionist Temporal Classification (CTC) loss. The best performing deep learning model achieves 91.4% median match rate on E. Coli dataset using R9 pore chemistry and 1D reads.
Basecaller, MinION, R9, CNN, CTC, Next generation sequencing
nije evidentirano
nije evidentirano
nije evidentirano
nije evidentirano
nije evidentirano
nije evidentirano
Podaci o prilogu
1-8.
2017.
objavljeno
Podaci o matičnoj publikaciji
2nd International workshop on deep learning for precision medicine, ECML-PKDD 2017
Podaci o skupu
2nd International workshop on deep learning for precision medicine, ECML-PKDD 2017
predavanje
18.09.2017-22.09.2017
Skopje, Sjeverna Makedonija