Data from: Two low coverage bird genomes and a comparison of reference-guided versus de novo genome assemblies

Card DC, Schield DR, Reyes-Velasco J, Fujita MK, Andrew AL, Oyler-McCance SJ, Fike JA, Tomback DF, Ruggiero RP, Castoe TA

Date Published: September 26, 2014

DOI: http://dx.doi.org/10.5061/dryad.qn1n2

 

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Title Sage-Grouse de novo assembly
Downloaded 5 times
Description De novo assembly of the Gunnison Sage-Grouse using CLC Genomics Workbench. Includes CLC assembly report.
Download Sage_Grouse_denovo_assembly_07-17-2013_DCC.tar.bz2 (97.91 Mb)
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Title Clark's Nutcracker de novo assembly
Downloaded 7 times
Description De novo assembly of the Clark's Nutcracker using CLC Genomics Workbench. Includes CLC assembly report.
Download Clarks_Nutcracker_denovo_assembly_07-17-2...ar.bz2 (212.5 Mb)
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Title Sage-Grouse to Chicken chromosome annotation
Downloaded 4 times
Description Chromsome annotation of the Sage-Grouse using the Chicken genome. Used 1x reference-guided assembly and blast, and assumed high synteny between species.
Download SG_chrs.tar.bz2 (93.94 Mb)
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Title Clark's Nutcracker to Zebra Finch chromosome annotation
Downloaded 3 times
Description Chromosome annotation of the Clark's Nutcracker using the Zebra Finch genome. Used 1x reference-guided assembly and blast, and assumed high synteny between species.
Download CN_chrs.tar.bz2 (209.6 Mb)
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Title Sage-Grouse 1x reference-guided genome
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Description 1x consensus Sage-Grouse genome from reference-guided assembly using the Chicken genome as reference. Assembly statistics report is included.
Download SG_1x_guided_consensus.tar.bz2 (195.9 Mb)
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Title Sage-Grouse 2x reference-guided genome
Downloaded 1 time
Description 2x consensus Sage-Grouse genome from reference-guided assembly using the Chicken genome as reference. Assembly statistics report is included.
Download SG_2x_guided_consensus.tar.bz2 (135.2 Mb)
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Title Sage-Grouse 5x reference-guided genome
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Description 5x consensus Sage-Grouse genome from reference-guided assembly using the Chicken genome as reference. Assembly statistics report is included.
Download SG_5x_guided_consensus.tar.bz2 (74.64 Mb)
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Title Sage-Grouse mitochondrial assembly and MITOS annotation
Downloaded 2 times
Description Reference-guided assembly of the Sage-Grouse mitochondrion using consensus Galliformes mitochondrial sequence as guide. Includes MITOS annotation.
Download SG_MITOS_MtGenomes_Annotation.tar.bz2 (686.4 Kb)
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Title Clark's Nutcracker 1x reference-guided genome
Downloaded 3 times
Description 1x consensus Clark's Nutcracker genome from reference-guided assembly using the Zebra Finch genome as reference. Assembly statistics report is included.
Download CN_1x_guided_consensus.tar.bz2 (209.6 Mb)
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Title Clark's Nutcracker 2x reference-guided genome
Downloaded 2 times
Description 2x consensus Clark's Nutcracker genome from reference-guided assembly using the Zebra Finch genome as reference. Assembly statistics report is included.
Download CN_2x_guided_consensus.tar.bz2 (177.4 Mb)
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Title Clark's Nutcracker 5x reference-guided genome
Downloaded 2 times
Description 5x consensus Clark's Nutcracker genome from reference-guided assembly using the Zebra Finch genome as reference. Assembly statistics report is included.
Download CN_5x_guided_consensus.tar.bz2 (101.9 Mb)
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Title Clark's Nutcracker mitochondrial assembly and MITOS annotation
Downloaded 3 times
Description Reference-guided assembly of the Clark's Nutcracker mitochondrion using consensus Corvidae mitochondrial sequence as guide. Includes MITOS annotation.
Download CN_MITOS_MtGenomes_Annotation.tar.bz2 (1.030 Mb)
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When using this data, please cite the original publication:

Card DC, Schield DR, Reyes-Velasco J, Fujita MK, Andrew AL, Oyler-McCance SJ, Fike JA, Tomback DF, Ruggiero RP, Castoe TA (2014) Two low coverage bird genomes and a comparison of reference-guided versus de novo genome assemblies. PLoS ONE 9(9): e106649. http://dx.doi.org/10.1371/journal.pone.0106649

Additionally, please cite the Dryad data package:

Card DC, Schield DR, Reyes-Velasco J, Fujita MK, Andrew AL, Oyler-McCance SJ, Fike JA, Tomback DF, Ruggiero RP, Castoe TA (2014) Data from: Two low coverage bird genomes and a comparison of reference-guided versus de novo genome assemblies. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.qn1n2
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