Tools for analyzing DNA methylation data

Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.

C++ code library that includes functions used in many of the Smith lab projects

Thousands of high-quality analyzed methylomes.

HTSlib wrapper (mostly for BAM/SAM) in C++.

A tool for accurately detecting actively translating ORFs from Ribo-seq data

A C++ drop-in replacement of FastQC to assess the quality of sequence read data

Software for predicting library complexity and genome coverage in high-throughput sequencing.

Software tools for regulatory sequence analysis

Scripts, pipelines, summary data and figures for this project.