Tassel3 Conversion
Tassel3 Conversion
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This application harnesses the conversion capabilities of the Tassel 3 pipeline in order to facilitate conversion of common GWAS file formats.
Quick Start
- Select the expandable menu that matches your input file format.
- Upload all required input files within that menu.
- Select the Output expandable menu (it will be the last expandable menu option).
- Select the file-format that matches the format you would like to export to from the drop-down list.
- Launch analysis. Once the conversion is completed the converted file will be found within the relevant analysis sub-folder as converted.(your format extension).
- Resources: http://www.maizegenetics.net/tassel/docs/TasselPipelineCLI.pdf
Test Data
Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> Tassel3 Conversion.
Available Input Formats
Format |
Extension(s) |
|---|---|
HapMap |
.hmp.txt |
PLINK |
.map, .ped |
Flapjack |
.map, .geno |
FASTA |
.fas |
BLOB |
.zip, .gz |
Genetic Map |
.map, .txt |
Available Export Formats
Format |
Extension(s) |
|---|---|
HapMap |
.hmp.txt |
HapMap Diploid |
.hmp.txt |
PLINK |
.map, .ped |
BLOB |
.zip, .gz |
Flapjack |
.map, .geno |
Phylip (Sequential) |
.phy or .ph |
Phylip (Interleaved) |
.phy or .ph |
Tab Delimited Text |
.txt |