Pinned

1. TrimGalore Public

   A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data

   Perl 303 109

2. Bismark Public

   A tool to map bisulfite converted sequence reads and determine cytosine methylation states

   HTML 247 77

3. SNPsplit Public

   Allele-specific alignment sorting

   Perl 36 14

4. reStrainingOrder Public

   A little QC tool that attempts to predict the genotype of mouse samples used, based on prior knowledge of high-quality SNPs from the Mouse Genomes Project

   LilyPond 1 1

5. IMPLICON Public

   A processing guide for IMPLICON data (bisulfite amplicon data for imprinted loci)

   Python 1

6. TrAEL-seq Public

   A collection of software used for the TrAEL-seq manuscript

   Python