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Archived Documentation
Genomics data
You can access genomics data in one of the following locations:
The data is structured on both the TERRA-REF strorage (accessible via Globus and Workbench) and CyVerse Data Store infrastructures as follows:
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|-terraref
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| |-genomics
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| | |-raw_data
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| | | |-bap
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| | | | |-resequencing
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| | | |-ril
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| | | | |-gbs
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| | |-derived_data
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| | | |-bap
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| | | | |-resequencing
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| | | | | |-danforth_center
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| | | |-ril
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| | | | |-gbs
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| | | | | |-kansas_state
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Whole-genome resequencing
Raw data
Raw data are in bzip2 FASTQ format, one per read pair (*_R1.fastq.bz2 and *_R2.fastq.bz2). 384 samples are available. For a list of the lines sequenced, see the sample table.
Derived data
Data derived from analysis of the raw resequencing data at the Danforth Center (version1) are available as gzipped, genotyped variant call format (gVCF) files and the final combined hapmap file.
Genotyping-by-sequencing (GBS)
Raw data
Raw data are in gzip FASTQ format. 768 samples are available. For a list of lines sequenced, see the sample table.
Derived data
Combined genotype calls are available in VCF format.
KSU Genomics Pipeline / GBS/RIL analysis
Raw Data
- genomics/raw_data/ril/gbs
- H5JYFBCXY_1_fastq.txt
- H5JYFBCXY_2_fastq.txt
- Key_ril_terra
Derived Data
- genomics/derived_data/ril/gbs/kansas_state/version1/imp_TERRA_RIL_SNP.vcf
Last modified 2yr ago