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HiFive: a tool suite for easy and efficient HiC and 5C data analysis.

ABSTRACT: The chromatin interaction assays 5C and HiC have advanced our understanding of genomic spatial organization, but analysis approaches for these data are limited by usability and flexibility. The HiFive tool suite provides efficient data handling and a variety of normalization approaches for easy, fast analysis and method comparison. Integration of MPI-based parallelization allows scalability and rapid processing time. In addition to single-command analysis of an entire experiment from mapped reads to interaction values, HiFive has been integrated into the open-source, web-based platform Galaxy to connect users with computational resources and a graphical interface. HiFive is open-source software available from http://taylorlab.org/software/hifive/ .

SUBMITTER: Sauria ME

PROVIDER: S-EPMC5410870 | biostudies-other | 2015 Oct

REPOSITORIES: biostudies-other

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HiFive: a tool suite for easy and efficient HiC and 5C data analysis.

Sauria Michael Eg ME Phillips-Cremins Jennifer E JE Corces Victor G VG Taylor James J

Genome biology 20151024

The chromatin interaction assays 5C and HiC have advanced our understanding of genomic spatial organization, but analysis approaches for these data are limited by usability and flexibility. The HiFive tool suite provides efficient data handling and a variety of normalization approaches for easy, fast analysis and method comparison. Integration of MPI-based parallelization allows scalability and rapid processing time. In addition to single-command analysis of an entire experiment from mapped read ...[more]

PMID: 26498826

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