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Genome Analysis Unit

About run_salmon_spg_wf_on_biowulf …


run_salmon_spg_wf_on_biowulf is a command line python script that runs salmon_spg_wf only or both salmon_spg_wf then quant_sf2express_table (with use of flag –generate_exp_tables ).


Command-line Usage to run salmon_spg_wf only


python run_salmon_spg_wf_on_biowulf.py \
–bill_to org-nci_ccr_so1 \
–invitees mcintoshc, pcf \
–salmon_library project-FXgYz7005FKkPZkbBxbVGXQv:file-FXYq2180v1xq1k4p3g5g99q8 \
–fastq_directory /…/FASTQ \
–with_project A_JUNK_PROJECT \
–name analysis_name

Command-line Usage to run both salmon_spg_wf and quant_sf2express_tables.


python run_salmon_spg_wf_on_biowulf.py \
–bill_to org-nci_ccr_so1 \
–invitees mcintoshc, pcf \
–salmon_library project-FXgYz7005FKkPZkbBxbVGXQv:file-FXYq2180v1xq1k4p3g5g99q8\
–fastq_directory /…/FASTQ \
–with_project A_JUNK_PROJECT \
–generate_exp_tables \
–name analysis_name 

Output Files



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