HomeoRoq specifications

Unique identifier:
OMICS_21224
Software type:
Pipeline/Workflow
Restrictions to use:
None
Input format:
FASTA
Computer skills:
Advanced
Requirements:
STAR, Samtools, R-package locfit (used in “calcpval_one.R”), R-package doMC (used in “calcpval_one.R”)
Name:
Homeolog Ratio and Quantification
Interface:
Command line interface
Input data:
Parental genomic sequences [Parent1_genome.fas] and [Parent2_genome.fas] and RNA-seq reads (paired-end), 6 libraries.
Operating system:
Unix/Linux
Stability:
Stable
Maintained:
Yes

versioning

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HomeoRoq distribution

download

HomeoRoq support

Documentation

Maintainers

  • Jun Sese <>
  • Kentaro Shimizu <>
  • Satoru Akama <>

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Credits

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Publications

Institution(s)

Department of Computer Science, Tokyo Institute of Technology, Tokyo, Japan; Institute of Evolutionary Biology and Environmental Studies and Institute of Plant Biology, University of Zurich, Zurich, Switzerland

Funding source(s)

Supported by Young Investigator Award of Human Frontier Science Program; Marie Heim-Vogtlin grant of the Swiss National Science Foundation (SNF) and Forschungskredit of University of Zurich; the University Research Priority Programs of Evolution in Action of the University of Zurich and of Systems
Biology/Functional Genomics; JSPS KAKENHI [23128504, 24651227 and 24680032] and Grant-in-Aid for Scientific Research on Innovative Area "Genome Science", Ministry of Education, Culture, Sports, Science and Technology in Japan.

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