ccsmethphase 5mC calling pipeline with PacBio ccs reads

Introduction

以基因组PacBio CCS测序数据和参考基因组序列作为输入，基于深度学习、注意力机制和序列比对算法，利用PacBio CCS测序数据中的对甲基化敏感的聚合酶动力学特征，对所测物种基因组上CpG位点的甲基化状态进行预测。

Using genomic PacBio CCS sequencing data and reference genome sequences as inputs, based on deep learning, attention mechanisms, and sequence alignment algorithms, the methylation status of CpG sites on the genome of the measured species is predicted using the methylation sensitive polymerase dynamics features in PacBio CCS sequencing data.

Publications

  1. DNA 5-methylcytosine detection and methylation phasing using PacBio circular consensus sequencing
    Peng Ni, Fan Nie, Zeyu Zhong, Jinrui Xu, Neng Huang, Jun Zhang, Haochen Zhao, You Zou, Yuanfeng Huang, Jinchen Li, Chuan-Le Xiao, Feng Luo & Jianxin Wang, - Nature Communications

Credits

  1. Jianxin Wang jxwang@mail.csu.edu.cn
    Investigator

    School of Computer Science and Engineering, Central South University, China

  2. Peng Ni nipeng@csu.edu.cn
    Investigator

    School of Computer Science and Engineering, Central South University, China

  3. Zeyu Zhong zeyuzhong@csu.edu.cn
    Developer

    School of Computer Science and Engineering, Central South University, China

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Summary
AccessionBT007402
Tool TypeApplication
CategoryDNA methylation, Methylation site prediction
PlatformsLinux/Unix
TechnologiesBASH, Python3, R
User InterfaceTerminal Command Line
Input DataBAM, FASTA
Latest Releasev1.0 (January 17, 2024)
Download Count346
Country/RegionChina
Submitted ByFei Guo
Fundings

国家重点研发计划项目(the National Key Research and Development Program of China, No. 2021YFF1201200)