Title |
HiFive: a tool suite for easy and efficient HiC and 5C data analysis
|
---|---|
Published in |
Genome Biology, October 2015
|
DOI | 10.1186/s13059-015-0806-y |
Pubmed ID | |
Authors |
Michael EG Sauria, Jennifer E. Phillips-Cremins, Victor G. Corces, James Taylor |
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/ . |
X Demographics
Geographical breakdown
Country | Count | As % |
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United States | 5 | 24% |
United Kingdom | 3 | 14% |
Spain | 1 | 5% |
Germany | 1 | 5% |
Italy | 1 | 5% |
Brazil | 1 | 5% |
France | 1 | 5% |
Unknown | 8 | 38% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Scientists | 10 | 48% |
Members of the public | 10 | 48% |
Science communicators (journalists, bloggers, editors) | 1 | 5% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
United Kingdom | 2 | 1% |
Germany | 1 | <1% |
France | 1 | <1% |
Lithuania | 1 | <1% |
Norway | 1 | <1% |
Denmark | 1 | <1% |
Russia | 1 | <1% |
Spain | 1 | <1% |
Japan | 1 | <1% |
Other | 1 | <1% |
Unknown | 123 | 92% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 40 | 30% |
Researcher | 32 | 24% |
Student > Bachelor | 12 | 9% |
Student > Master | 9 | 7% |
Professor | 7 | 5% |
Other | 21 | 16% |
Unknown | 13 | 10% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 51 | 38% |
Biochemistry, Genetics and Molecular Biology | 42 | 31% |
Computer Science | 12 | 9% |
Engineering | 4 | 3% |
Medicine and Dentistry | 3 | 2% |
Other | 9 | 7% |
Unknown | 13 | 10% |