This is the Linux app named bspipe whose latest release can be downloaded as bspipe-1.3.zip. It can be run online in the free hosting provider OnWorks for workstations.
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bspipe
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DESCRIPTION
BSpipe is a comprehensive pipeline from sequence quality control and mapping to functional analysis of differentially methylated regions:
(1) sequencing quality assessment,
(2) sequence cleaning,
(3) sequence read mapping,
(4) methylation quantification,
(4) sample comparisons based on methylation profile,
(5) identification of DMRs (differentially methylated regions),
(6) annotation of DMRs,
(7) functional analysis of differentially methylated genes,
(8) generation of input files for visualization, and
(9) support for advanced sequencing technologies such as TAB-seq, OxBS-seq, MAP-it, and NOMe-seq.
Audience
Science/Research
User interface
Command-line
Programming Language
Unix Shell, Perl, S/R
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/bspipe/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
