3D de novo assembly (3D DNA) pipeline
For a detailed description of the pipeline and how it integrates with other tools designed by the Aiden Lab see Genome Assembly Cookbook on http://aide...1568 days ago
HNADOCK: a nucleic acid docking server for modeling RNA/DNA–RNA/DNA 3D complex structures
...T-based global search strategy and an intrinsic scoring function for nucleic acid interactions. Users are required to provide the three-dimensional (3D) structures of the two molecu...1445 days ago
HS3D: Homo Sapiens Splice Sites Dataset
HS3D (Homo Sapiens Splice Sites Dataset) is a data set of...windows. 1. P.Pollastro, S.Rampone (2002). HS3D, a Dataset of Homo Sapiens Sp...ite this paper) 2. P.Pollastro, S.Rampone (2003). HS3D: Homo Sapiens Splice Site Dat...1437 days ago
1213 days ago
k-mers tutorial - classification and taxonomy
DNA k-mers underlie much of our assembly work, and we (along with many others!) have spent a lot of time thinking about how to store k-mer graphs efficiently,&nb...997 days ago
Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the s...814 days ago