Metadata-Version: 1.1
Name: ccsmeth
Version: 0.3.0
Summary: Detecting DNA methylation from PacBio CCS reads
Home-page: https://github.com/PengNi/ccsmeth
Author: Peng Ni
Author-email: 543943952@qq.com
License: BSD-3-Clause-Clear license
Download-URL: https://github.com/PengNi/ccsmeth/archive/refs/tags/0.3.0.tar.gz
Description-Content-Type: UNKNOWN
Description: ccsmeth
        ========
        
        
        Documentation
        -------------
        v0.3.0
        ----------
        add multi-threads support for reading .bam by pysam
        
        force mod prob discrete integer in [0, 255], which means mod prob in [0, 1), in ML tag
        
        fix align_hifi module, enable minimap2 and bwa
        
        update requirements
        
        
        v0.2.3
        ----------
        more options in train module
        
        multi-gpu support in call_mods and trainm modules
        
        add denoise module
        
        Note: skip 0.2.2, cause 0.2.2 has been deleted in pypi (https://pypi.org/manage/project/ccsmeth/history/)
        
        
        v0.2.1
        ----------
        minor fixes
        
        change default mode in extract module
        
        improvements in call_freqb module
        
        
        v0.2.0
        ----------
        use hifi reads instead of subreads as input
        
        modbam support
        
        use (chrom, pos, strand) as key instead of (chrom, pos) to handle CG mismatch in CCS read when call_freq
        
        
        v0.1.2
        ----------
        add pbmm2 as default aligner
        
        enable gzip output
        
        
        v0.1.1
        ----------
        bug fixes
        
        
        v0.1.0
        ----------
        initialize
Keywords: methylation,pacbio,neural network
Platform: Linux
Platform: MacOS
Classifier: Programming Language :: Python :: 3
Classifier: Development Status :: 4 - Beta
Classifier: Natural Language :: English
Classifier: License :: OSI Approved :: BSD License
Classifier: Operating System :: MacOS :: MacOS X
Classifier: Operating System :: POSIX :: Linux
