Base Modification Datasets and Software

A growing number of datasets and software tools showcase the capability of SMRT® Sequencing to detect DNA base modifications, including methylation.

For more base modification content, see the PacBio basemod application page.

See also the full Datasets, [Examples](How To's and Examples) and [Compatible Software](Compatible Software) pages.

Datasets

• [The Methylomes of Six Bacteria](The Methylomes of Six Bacteria)
• [Statistical Modeling of Enzyme Kinetics for Base Modification Detection](CRF for Base Modification)
• [E. coli K12 MG1655 Methylome](E coli K12 MG1655 Methylome)

Examples and How-To's

• [Detect base modifications with SMRT Sequencing](Detect Base Modifications with SMRT Sequencing)

Software Tools

• kineticsTools: Python code for kinetic analysis
• R-kinetics: R package for kinetic analysis
• MotifMaker: bundled in SMRT Analysis since v1.3.3
• motif-finding: R code for motif analysis