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WBSA specifications

Information


Unique identifier OMICS_04077
Name WBSA
Alternative name Web Service for Bisulfite Sequencing Data Analysis
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input format FASTQ
Output format SAM, HTML report, tab-delimited text, genome browser
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Wenming Zhao

Information


Unique identifier OMICS_04077
Name WBSA
Alternative name Web Service for Bisulfite Sequencing Data Analysis
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input format FASTQ
Output format SAM, HTML report, tab-delimited text, genome browser
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Wenming Zhao

Publication for Web Service for Bisulfite Sequencing Data Analysis

WBSA citations

 (3)
library_books

MethBank 3.0: a database of DNA methylomes across a variety of species

2017
Nucleic Acids Res
PMCID: 5753180
PMID: 29161430
DOI: 10.1093/nar/gkx1139

[…] w.bioinformatics.babraham.ac.uk/projects/fastqc), low quality read ends are filtered and adapter sequences are removed via Trim Galore (http://www.bioinformatics.babraham.ac.uk/projects/trim_galore). WBSA (Web service for Bisulfite Sequencing data Analysis) () is used to align reads to genome, identify cytosine context, and annotate the methylation levels of cytosine sites. A CpG island is defined […]

library_books

TEA: the epigenome platform for Arabidopsis methylome study

2016
BMC Genomics
PMCID: 5260138
PMID: 28155665
DOI: 10.1186/s12864-016-3326-6

[…] enome. Tools have been developed to deal with whole-genome BS-Seq (WGBS) data, such as BiSeq [], BSmooth [], DMAP [], methPipe [], methylKit [], methylPipe [], methylSig [], MOABS [], radMeth [], and WBSA []. Most of these analysis tools focus on identifying differentially methylated regions (DMRs) and defining differentially methylated genes (DMGs) as genes with DMRs in or near the gene body. Ara […]

library_books

Profiling genome wide DNA methylation

2016
PMCID: 4926291
PMID: 27358654
DOI: 10.1186/s13072-016-0075-3

[…] ree-letter aligner that supports the local alignment and computational removal of potentially unconverted reads. The alignment profile can be visualized with tools such as the UCSC genome browser [], WBSA [], IGV [] and Methylation plotter [], which results in greater clarity at a single-base resolution across the genome. […]

Citations

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WBSA institution(s)
Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, China

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