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chevron_left Bioinformatics workflows SNP detection Methylation annotation chevron_right
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MethGo specifications

Information


Unique identifier OMICS_11056
Name MethGo
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data MethGo takes the alignment file from both WGBS and RRBS as the input data.
Operating system Unix/Linux
Programming languages Python
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Pao-Yang Chen <>

Publication for MethGo

MethGo in publications

 (3)
PMCID: 5577757
PMID: 28854962
DOI: 10.1186/s13072-017-0148-y

[…] genebody regions, respectively. in our pipeline, the maize rrbs data can be mapped by general bisulfite aligner such as bs seeker 2 [], and the downstream methylome analysis by the analyzer such as methgo []., as a first attempt, we compared dna methylation profiles between shoot and tassel primordia to investigate methylation changes in vegetative and reproductive stages. we took advantage […]

PMCID: 4926291
PMID: 27358654
DOI: 10.1186/s13072-016-0075-3

[…] leĀ  lists 5 post-alignment analysis tools, and each of these tools has specific functions, e.g., bspat can detect allele-specific methylation [], saap-rrbs can extract the annotation of each c [] and methgo can convert context methylation levels into average and genome-wide plots, as well as extract snp and cnv profiles []., wgbs and rrbs generate methylation calls at each c as an estimate of the […]

PMCID: 4682400
PMID: 26679412
DOI: 10.1186/1471-2164-16-S12-I1

[…] sequencing data by replacing empirical parameters with emission functions for hmm-based dmr detection [] complimentary to the aforementioned bisulfite sequencing primary data analysis tools is methgo []. this analysis tool for bisulfite sequence alignments provides users options to see the methylation site coverage distribution, methylation states at defined regions (e.g. promoter […]


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MethGo institution(s)
Institute of Plant and Microbial Biology, Academia Sinica, Taipei, Taiwan; Department of Electrical and Computer Engineering, Carnegie Mellon University, Pittsburgh, PA, USA; Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, CA, USA
MethGo funding source(s)
This work was supported by a grant from Academia Sinica, and grants from MOST-103-2313-B-001-003-MY3 and MOST-103-2633-B-001-002 and NHRI-EX104-10324SC.

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