CGmapTools specifications

Information


Unique identifier OMICS_20744
Name CGmapTools
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data Alignment result, DNA methylome
Input format BAM, CGmap, ATCGmap
Output data figures, mate-analysis result
Output format PNG, PDF, XLS
Biological technology Illumina
Operating system Unix/Linux, Mac OS
Programming languages C, C++, Perl, Python, R
License MIT License
Computer skills Advanced
Version 0.0.3
Stability Beta
Source code URL https://codeload.github.com/guoweilong/cgmaptools/tar.gz/v0.0.3b
High performance computing No
Free trial Yes
Registration required No
Maintained Yes
Availability Yes

Download


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Versioning


No version available

Maintainer


Additional information


https://cgmaptools.github.io/cgmaptools_documentation/what-is-cgmaptools.html

Publication for CGmapTools

CGmapTools citation

library_books

Receptor targeted aptamer siRNA conjugate directed transcriptional regulation of HIV 1

2018
Theranostics
PMCID: 5858168
PMID: 29556342
DOI: 10.7150/thno.23085

[…] nformatics.babraham.ac.uk/projects/trim_galore/ (accessed 26 Sep 17)) with the --rrbs option to trim paired reads, aligned them using the default parameters of Bismark with no deduplication and used cgmaptools to visualize the results. […]

CGmapTools reviews

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BS-Seeker2

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Desktop
CGmapTools provides seamless tools for downstream analysis of BS-Seeker2.
It can also accept BAM files generated by BS-Seeker2 and Bismark.
Weilong Guo's avatar image

Weilong Guo

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Desktop
CGmapTools is a command-line package, can be available for SNV calling analysis, Allele-specific methylation analysis, coverage analysis, differentially methylation analysis, and bin-wise, region-wise, chromosome-wise, and context-wise DNA methylation analysis.
It also designed binary CGbz format to improve storage and accessing large DNA methylome data.
CGmapTools also support lots of figure generations.