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1. smithlabcode/methpipe smithlabcode/methpipe Public archive

   A pipeline for analyzing DNA methylation data from bisulfite sequencing.

   C++ 68 27

2. smithlabcode/walt smithlabcode/walt Public archive

   WALT is a read mapping program for bisulfite sequencing DNA methylation studies.

   C++ 17 8

3. andrewdavidsmith/adssrc andrewdavidsmith/adssrc Public

   A subset of the programs I use in my own data analysis.

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4. paperclip paperclip Public

   lists of papers on different topics

   1

5. smithlabcode/mlml smithlabcode/mlml Public archive

   Simultaneously estimate hydroxymethylation (5hmC) and methylation (5mC) levels

   C++ 2 2

6. smithlabcode/Epiphyte smithlabcode/Epiphyte Public

   A package for estimating phylogenetic tree for epigenomes (DNA methylation primarily) from multiple species.

   C++ 4 2