Smith Lab

Login: smithlabcode

Company: null

Location: Los Angeles, CA

email:

Blog: http://smithlabresearch.org

Members

1. Meng Zhou
2. Saket Choudhary

Repositories

Amordad

Amordad is a database engine for high dimensional data

-DEPRECATED-amrfinder

DEPRECATED: ACTIVELY MANAGED SOFTWARE IN METHPIPE REPOSITORY.

dme

The DME algorithm for discovering motifs that distinguish two sets of sequences.

Epiphyte

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

methpipe

A pipeline for analyzing DNA methylation data from bisulfite sequencing.

mlml

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

piranha

Piranha is a peak-caller for CLIP- and RIP-seq data

preseq

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

preseqR

null

radmeth

null

riborex

Riborex: Fast and flexible identification of differential translation from Ribo-seq data

rmap

Short reads mapper for next-generation sequencing data (DNA-seq, BS-seq, etc)

rseg

A software tool to identify dispersed epigenetic regions from ChIP-seq data

smithlab_cpp

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

utils

A collection of utility programs that might be useful to someone.

walt

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

zagros

Zagros is an algorithm for motif discovery in CLIP-seq data