Mercurial > repos > greg > queue_genotype_workflow
changeset 3:36f8098ff528 draft
Uploaded
| author | greg |
|---|---|
| date | Mon, 18 Nov 2019 11:27:29 -0500 |
| parents | fa50d7c895c2 |
| children | 163ecfba5961 |
| files | queue_genotype_workflow.xml |
| diffstat | 1 files changed, 12 insertions(+), 0 deletions(-) [+] |
line wrap: on
line diff
--- a/queue_genotype_workflow.xml Mon Sep 16 14:01:09 2019 -0400 +++ b/queue_genotype_workflow.xml Mon Nov 18 11:27:29 2019 -0500 @@ -55,6 +55,18 @@ Uses the Galaxy/Bioblend API to execute the complete multilocus genotype analysis pipeline for corals or symbiants. This tool must be able to access the corals (stag) database. +**Required options** + + * **Affymetrix 96 well plate metadata file** - a tabular file created by the user to describe their samples - it can be exported from Excel using this example as a template: http://baumslab.org/documents/SNPChip/STAG_Metadata_Template_v3.xlsm + * **Sample attributes file** - the Sample Attributes tabular file created by the Affymetrix sequencer for the plate + * **Probeset annotation file** - the annotation CSV file created by the Affymetrix sequencer for the plate + * **Apt-probeset genotype summary file** - the summary CSV file created by the Affymetrix sequencer for the plate + * **Apt-probeset genotype snp-posteriors file** - the snp-posteriors CSV file created by the Affymetrix sequencer for the plate + * **Apt-probeset genotype report file** - the report CSV file created by the Affymetrix sequencer for the plate + * **Apt-probeset genotype confidences file** - the confidences CSV file created by the Affymetrix sequencer for the plate + * **Apt-probeset genotype calls file** - the calls CSV file created by the Affymetrix sequencer for the plate + * **Fasta reference sequence** - selected fasta reference dataset for the samples + </help> <citations> <citation type="bibtex">