Roth E Conrad

icon indicating a website link https://scholar.google.com/citations?user=RJZ98uQAAAAJ&hl=en icon indicating an email [email protected]

icon company UGA / USDA-ARS-GBRU icon location Athens, GA icon location Research scientist (bioinformatics analyst) with USDA-ARS-GBRU at UGA in Justin Vaughn's group (https://genemachine.net/).

Results 4 comments of Roth E Conrad

dsshow savefig error with matplotlib pdf and svg export. Shading intensity variation in png export.

@pstjohn Thanks man. That works great. What about setting the axis to log scale? I didn't find a full list of options for dsshow on the API or documentation page...

Column labels of the visual output

Thanks Chirag, Could you explicitly state the data column labels for me though? Specifically for the last four data entries: genome1 genom2 98.3572 NA NA NA 543000 545999 2088 5087...

Missing genes in output after adding alignments to clustering.

Ok. That totally works. Thank you!! I had to give it a super large value. Should I think about adjusting some clustering thresholds? Does this mean some of the sequences...

How are the ID's linked to the Phyla for the phylogenetic tree example?

Oh I see now that your nwk file has taxa IDs included. So the tcircle.plot_highlight(tarc.arc_id, highlight_dict) function looks for those labels. What if my nwk file only has leaf node...