bioconductor-basic4cseq

Summary

Basic4Cseq is an R/Bioconductor package for basic filtering, analysis and subsequent visualization of 4C-seq data. Virtual fragment libraries can be created for any BSGenome package, and filter functions for both reads and fragments and basic quality controls are included. Fragment data in the vicinity of the experiment’s viewpoint can be visualized as a coverage plot based on a running median approach and a multi-scale contact profile.

Versions

  • 1.6.0

License

LGPL-3

Meta

package:
  name: bioconductor-basic4cseq
  version: 1.6.0
source:
  fn: Basic4Cseq_1.6.0.tar.gz
  url: https://bioarchive.galaxyproject.org/Basic4Cseq_1.6.0.tar.gz
  md5: 0a056c1a35f02918bfd165339fd6c00f
build:
  number: 0
  rpaths:
    - lib/R/lib/
    - lib/
requirements:
  build:
    - bioconductor-biostrings
    - bioconductor-bsgenome.ecoli.ncbi.20080805
    - bioconductor-genomicalignments
    - bioconductor-genomicranges
    - r
    - r-catools
    - r-rcircos
  run:
    - bioconductor-biostrings
    - bioconductor-bsgenome.ecoli.ncbi.20080805
    - bioconductor-genomicalignments
    - bioconductor-genomicranges
    - r
    - r-catools
    - r-rcircos
test:
  commands:
    - '$R -e "library(''Basic4Cseq'')"'
about:
  home: http://bioconductor.org/packages/release/bioc/html/Basic4Cseq.html
  license: LGPL-3
  summary: 'Basic4Cseq is an R/Bioconductor package for basic filtering, analysis
    and subsequent visualization of 4C-seq data. Virtual fragment libraries can be
    created for any BSGenome package, and filter functions for both reads and fragments
    and basic quality controls are included. Fragment data in the vicinity of the
    experiment''s viewpoint can be visualized as a coverage plot based on a running
    median approach and a multi-scale contact profile.'