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  1. IGB
  2. IGBF-4277

Run Nextflow on Polli

        Details

        • Type: Task
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: None
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          Description



          Once Polli data is in place and we have confirmed data filtered for trimming, run Nextflow.

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              robofjoy Robert Reid added a comment -

              We use the original.

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              robofjoy Robert Reid added a comment - We use the original.
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              bbendick Brandon Bendickson added a comment -

              Can you review the results. Which results should we use for Deseq, the new or the original?

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              bbendick Brandon Bendickson added a comment - Can you review the results. Which results should we use for Deseq, the new or the original?
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              bbendick Brandon Bendickson added a comment -

              Gathered summarized results into this sheet: https://docs.google.com/spreadsheets/d/1pAijbCOI0KUq29KYo4mW2YZj8iE7IW-T2S9p5GhgFMU/edit?gid=1129882996#gid=1129882996

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              bbendick Brandon Bendickson added a comment - Gathered summarized results into this sheet: https://docs.google.com/spreadsheets/d/1pAijbCOI0KUq29KYo4mW2YZj8iE7IW-T2S9p5GhgFMU/edit?gid=1129882996#gid=1129882996
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              robofjoy Robert Reid added a comment -

              Next step, summarize the number of reads that align and don't align. (samtools view -F. or -f)

              And then compare these numbers to the previous official nextflow runs. Location in Google slides.

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              robofjoy Robert Reid added a comment - Next step, summarize the number of reads that align and don't align. (samtools view -F. or -f) And then compare these numbers to the previous official nextflow runs. Location in Google slides.
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              bbendick Brandon Bendickson added a comment -

              Nextflow run completed successfully, results found here: /projects/tomato_genome/fnb/dataprocessing/brandon_work/Kelsie_NEXTFLOW/poll

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              bbendick Brandon Bendickson added a comment - Nextflow run completed successfully, results found here: /projects/tomato_genome/fnb/dataprocessing/brandon_work/Kelsie_NEXTFLOW/poll

                People

                • Assignee:
                  robofjoy Robert Reid
                  Reporter:
                  robofjoy Robert Reid
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                  • Created:
                    Updated:
                    Resolved: