Data from: Gene prediction and annotation in Penstemon (Plantaginaceae): a workflow for marker development from extremely low-coverage genome sequencing

Blischak PD, Wenzel AJ, Wolfe AD

Date Published: December 5, 2014

DOI: http://dx.doi.org/10.5061/dryad.f6s22

 

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Title Perl script for functional annotations
Downloaded 1 time
Description Hit-desc.pl - Perl script for adding functional annotations to contigs using BLAST output (-outfmt 6). Note: This script uses regular expressions that are specific to targeting the accession numbers of our contigs and those that were used for BLAST searches. It is to be used as a reference for writing similar scripts for similar purposes but will not work as is for datasets other than our own. Requires an installation of BioPerl. Running too much BLAST output at once will kick you off of the NCBI server, so restrict the number of queries to ~500.
Download Hit-desc.pl (866 bytes)
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Title Penstemon
Description SNAP hidden Markov model parameter file used for Penstemon.
Download Penstemon.hmm (47.91 Kb)
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Title Penstemon-MAKER-FuncAnnots
Description Excel spreadsheet of functional annotations added to MAKER2 structural annotations.
Download Penstemon-MAKER-FuncAnnots.xlsx (534.9 Kb)
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Title MakerEST
Description FASTA file of EST sequences used during MAKER2 runs.
Download MakerEST.fasta (126.3 Mb)
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Title MakerProtein
Description FASTA file of protein sequences used during MAKER2 runs.
Download MakerProtein.fasta (47.83 Mb)
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When using this data, please cite the original publication:

Blischak PD, Wenzel AJ, Wolfe AD (2014) Gene prediction and annotation in Penstemon (Plantaginaceae): a workflow for marker development from extremely low-coverage genome sequencing. Applications in Plant Sciences 2(12): 1400044. http://dx.doi.org/10.3732/apps.1400044

Additionally, please cite the Dryad data package:

Blischak PD, Wenzel AJ, Wolfe AD (2014) Data from: Gene prediction and annotation in Penstemon (Plantaginaceae): a workflow for marker development from extremely low-coverage genome sequencing. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.f6s22
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