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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "multiHiCcompare" in publications use:'
type: software
license: MIT
title: 'multiHiCcompare: Normalize and detect differences between Hi-C datasets when
  replicates of each experimental condition are available'
version: 1.23.0
doi: 10.1093/bioinformatics/btz048
abstract: multiHiCcompare provides functions for joint normalization and difference
  detection in multiple Hi-C datasets. This extension of the original HiCcompare package
  now allows for Hi-C experiments with more than 2 groups and multiple samples per
  group. multiHiCcompare operates on processed Hi-C data in the form of sparse upper
  triangular matrices. It accepts four column (chromosome, region1, region2, IF) tab-separated
  text files storing chromatin interaction matrices. multiHiCcompare provides cyclic
  loess and fast loess (fastlo) methods adapted to jointly normalizing Hi-C data.
  Additionally, it provides a general linear model (GLM) framework adapting the edgeR
  package to detect differences in Hi-C data in a distance dependent manner.
authors:
- family-names: Dozmorov
  given-names: Mikhail
  email: mikhail.dozmorov@gmail.com
  orcid: https://orcid.org/0000-0002-0086-8358
- family-names: Stansfield
  given-names: John
  email: stansfieldjc@vcu.edu
preferred-citation:
  type: article
  title: 'multiHiCcompare: joint normalization and comparative analysis of complex
    Hi-C experiments'
  authors:
  - family-names: Stansfield
    given-names: John C.
  - family-names: Cresswell
    given-names: Kellen G.
  - family-names: Dozmorov
    given-names: Mikhail G.
  journal: Bioinformatics
  year: '2019'
  volume: '35'
  issue: '17'
  month: '9'
  url: https://github.com/dozmorovlab/multiHiCcompare
  doi: 10.1093/bioinformatics/btz048
repository: https://bioc.r-universe.dev
repository-code: https://github.com/dozmorovlab/multiHiCcompare
url: https://github.com/dozmorovlab/multiHiCcompare
contact:
- family-names: Dozmorov
  given-names: Mikhail
  email: mikhail.dozmorov@gmail.com
  orcid: https://orcid.org/0000-0002-0086-8358