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https://github.com/bioconductor/ensemblvep

[DEPRECATED] R Interface to Ensembl Variant Effect Predictor

https://github.com/bioconductor/ensemblvep

Science Score: 13.0%

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bioconductor-package core-package
Last synced: 6 months ago · JSON representation

Repository

[DEPRECATED] R Interface to Ensembl Variant Effect Predictor

Basic Info
Statistics
  • Stars: 5
  • Watchers: 9
  • Forks: 3
  • Open Issues: 2
  • Releases: 0
Topics
bioconductor-package core-package
Created over 8 years ago · Last pushed almost 2 years ago
Metadata Files
Readme Changelog

README 

=========================
Installing ensemblVEP 
=========================

To use ensemblVEP, the Ensembl Variant Effect Predictor (VEP)
software must be installed.

----------------------------------
Download and Install Ensembl VEP
----------------------------------
Follow the download and installation instructions on this page:
https://useast.ensembl.org/info/docs/tools/vep/script/vep_download.html

On Windows you may need to install the perl modules 
perl-DBD-mysql and perl-DBI if you do not have them.
All of this is documented on the Ensembl VEP web page. 

----------------------------------
Confirm installation
----------------------------------
Check that vep is executable and in
your path. This may involve modifying .bashrc and / or .profile
files.

On Unix and Mac:
  vep

On Windows:
  perl vep

Owner

  • Name: Bioconductor
  • Login: Bioconductor
  • Kind: organization

Software for the analysis and comprehension of high-throughput genomic data

GitHub Events

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Last synced: over 1 year ago

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  • Total issues: 6
  • Total pull requests: 1
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  • Total pull request authors: 1
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Top Authors
Issue Authors
  • jayoung (2)
  • jonathonthill (1)
  • Rohit-Satyam (1)
  • FrancescaLonghin (1)
  • audyavar (1)
Pull Request Authors
  • vjcitn (2)
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Dependencies

DESCRIPTION cran
  • BiocGenerics * depends
  • GenomicRanges * depends
  • VariantAnnotation * depends
  • methods * depends
  • Biostrings * imports
  • GenomeInfoDb * imports
  • S4Vectors >= 0.9.25 imports
  • SummarizedExperiment * imports
  • stats * imports
  • RUnit * suggests