User: tom.bair

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tom.bair10
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United States
Last seen:
4 years ago
Joined:
4 years, 1 month ago
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t*******@gmail.com

Posts by tom.bair

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Comment: C: Using bioblend to run a workflow with ${workflow_parameters}
... Here is an example that works but does not pass the sampleName variable through, not suprising since I am just guessing on syntax from bioblend.galaxy import GalaxyInstance from bioblend.galaxy.histories import HistoryClient from bioblend.galaxy.tools import ToolClient from bioblend.galaxy.workflow ...
written 4.1 years ago by tom.bair10
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Answer: A: Help with interpreting RNA-seq output
... Side Question: Any are possible I guess but with only 1 file I would guess subsequent entries in the fastq, you may want to filter into two files which is more typical   1. tophat would be more appropriate since int accounts for intronic regions, bowtie will not span introns 2. if you specify a g ...
written 4.1 years ago by tom.bair10
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Answer: A: use HIV as reference genome
... You can try making your own custom genome build User -> Custom Builds -> upload your own fasta file.   You might need to do several to cover all of the subgroups unless you know which one it is likely from     ...
written 4.1 years ago by tom.bair10
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Using bioblend to run a workflow with ${workflow_parameters}
... I have a workflow with output files that are renamed using workflow_parameters specified by putting things like ${sample_id} in the workflow editor. I can get the workflow to run but it is not clear to me how to access and assign the sample_id from workflowClient params or replacement_params seem li ...
galaxy bioblend written 4.1 years ago by tom.bair10

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