Hi-Corrector: a fast, scalable and memory-efficient package for normalizing large-scale Hi-C data.

ABSTRACT:

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Genome-wide proximity ligation assays, e.g. Hi-C and its variant TCC, have recently become important tools to study spatial genome organization. Removing biases from chromatin contact matrices generated by such techniques is a critical preprocessing step of subsequent analyses. The continuing decline of sequencing costs has led to an ever-improving resolution of the Hi-C data, resulting in very large matrices of chromatin contacts. Such large-size matrices, however, pose a great challenge on the memory usage and speed of its normalization. Therefore, there is an urgent need for fast and memory-efficient methods for normalization of Hi-C data. We developed Hi-Corrector, an easy-to-use, open source implementation of the Hi-C data normalization algorithm. Its salient featur

SUBMITTER: Li W 

PROVIDER: S-EPMC4380031 | biostudies-literature | 2015 Mar

REPOSITORIES: biostudies-literature