methylextract

We have hosted the application methylextract in order to run this application in our online workstations with Wine or directly.

Quick description about methylextract:

MethylExtract is a user friendly tool to generate i) high quality, whole genome methylation maps and ii) to detect sequence variation within the same sample preparation. The program is implemented into a single script and takes into account all major error sources: sequencing errors, bisulfite failure, clonal reads and single nucleotide variants. MethylExtract detects variation (SNVs � Single Nucleotide Variation) in a similar way than VarScan, a very sensitive method extensively used in SNP and genotype calling based on non-bisulfite treated reads.

Features:

• Methylation and SNV calling from NGS BS-Seq experiments
• Detects and removes potential PCR duplicates
• Putative bisulfite failures detection
• Sequencing errors control
• Statistical bisulfite failure assessment
• Bisulfite SAM / BAM files processing
• Multithreading and memory control

Programming Language: Perl.
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