DeepSEA specifications

Unique identifier:
OMICS_13506
Restrictions to use:
None
Input format:
FASTA, BED, VCF
Computer skills:
Basic
Source code URL:
http://deepsea.princeton.edu/media/code/deepsea.v0.94.tar.gz
Interface:
Web user interface
Input data:
DNA sequence, chromatin regions-hg19 coordinates, variants sequence
Output format:
ZIP, tab-delimited file
Stability:
Stable
Maintained:
Yes

DeepSEA specifications

Unique identifier:
OMICS_13506
Interface:
Command line interface
Input data:
DNA sequence, chromatin regions-hg19 coordinates, variants sequence
Output data:
DNA sequence feature predictions, variant effect predictions
Operating system:
Unix/Linux
Stability:
Stable
Software type:
Application/Script
Restrictions to use:
None
Input format:
FASTA, BED, VCF
Output format:
ZIP, tab-delimited file
Computer skills:
Advanced
Maintained:
Yes

versioning

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DeepSEA support

Documentation

Maintainer

  • Olga G. Troyanskaya <>
  • Olga G. Troyanskaya <>

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Credits

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Publications

Institution(s)

Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ, USA; Graduate Program in Quantitative and Computational Biology, Princeton University, Princeton, NJ, USA; Department of Computer Science, Princeton University, Princeton, NJ, USA; Simons Center for Data Analysis, Simons Foundation, New York, NY, USA

Funding source(s)

This work was primarily supported by US National Institutes of Health (NIH) grants R01 GM071966 and R01 HG005998; and in part by the US National Science Foundation (NSF) CAREER award (DBI-0546275), NIH award T32 HG003284 and NIH grant P50 GM071508 and by the Genetic Networks program of the Canadian Institute for Advanced Research (CIFAR).

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