Downloads
Methylation analysis packages for stand-alone version
  WGBS RRBS DMR
Package

wgbs_pipeline_custom.tar.gz    (774 MB)     [download]

rrbs_pipeline_custom.tar.gz    (223 MB)     [download]

dmr_pipeline_custom.tar.gz    (1.4 GB)     [download]

Document

wbsa_prerequisites.pdf     [download]

wgbs_pipeline_custom.pdf     [download]

wbsa_prerequisites.pdf     [download]

rrbs_pipeline_custom.pdf     [download]

wbsa_prerequisites.pdf     [download]

dmr_pipeline_custom.pdf     [download]

Required software

BWA 0.6.1 [download]

Samtools 0.1.8 [download]

Perl 5.8.8 [download]

R 2.11 [download]

BWA 0.6.1 [download]

Samtools 0.1.8 [download]

Perl 5.8.8 [download]

R 2.11 [download]

Perl 5.8.8 [download]

R 2.11 [download]

Required libraries

Perl modules:

GD::Graph

GD::Text

Text::NSP

RSPerl

Others:

GO.tar.gz [download]

Perl modules:

GD::Graph

GD::Text

Text::NSP

RSPerl

Others:

GO.tar.gz [download]

 
Linux system environment required GCC[download] JDK 1.6.0 [download] MySQL 5.0 [download]
References

Genome Reference [FTP]

Methylation analysis packages for PBS (Portable Batch System)
  WGBS RRBS DMR
Package

wgbs_pipeline_pbs.tar.gz    (622 MB)     [download]

rrbs_pipeline_pbs.tar.gz    (199 MB)     [download]

dmr_pipeline_pbs.tar.gz    (1.3 GB)     [download]

Document

wbsa_prerequisites.pdf     [download]

wgbs_pipeline_pbs.pdf     [download]

wbsa_prerequisites.pdf     [download]

rrbs_pipeline_pbs.pdf     [download]

wbsa_prerequisites.pdf     [download]

dmr_pipeline_pbs.pdf     [download]

Required software

BWA 0.6.1 [download]

Samtools 0.1.8 [download]

Perl 5.8.8 [download]

R 2.11 [download]

BWA 0.6.1 [download]

Samtools 0.1.8 [download]

Perl 5.8.8 [download]

R 2.11 [download]

Perl 5.8.8 [download]

R 2.11 [download]

Required libraries

Perl modules:

GD::Graph

GD::Text

Text::NSP

RSPerl

Others:

Corona_Lite_Plus.tar.gz [download]

GO.tar.gz [download]

Perl modules:

GD::Graph

GD::Text

Text::NSP

RSPerl

Others:

Corona_Lite_Plus.tar.gz [download]

GO.tar.gz [download]

Linux system environment required GCC[download] JDK 1.6.0 [download] MySQL 5.0 [download]
References

Genome Reference [FTP]