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TAMU-CPT / training-material

A collection of Galaxy-related training material
https://training.galaxyproject.org
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Update Loading Existing Genbank File into Apollo tutorial #81

Closed jrr-cpt closed 4 years ago

jrr-cpt commented 4 years ago

Edit 1: Adjust language to direct users to find latest version of published workflows wherever one is mentioned

Edit 2: Combine (fix agenda too) first two sections into Fetching Data: Manually or Automatically through Galaxy. Users need to acquire a genbank file at minimum, or alternatively the gff3 and fasta. Manually is what is explained now, focusing on Genbank file. Add info for downloading gff3 and fasta (just words are fine). Mention that Genbank can be converted to gff3 and fasta with tools on Galaxy (link them), and vice versa, but realizing some conversions are lossy. That is important to some users but not others. For automatic section, add the EFetch tool (use Genbank with contig option) for Genbank retrieval. Also mention efetchgbk2apollo workflow.

Edit 3: Change second section to Uploading from Genbank file into Apollo. Update screenshots if egregiously different (can't be explained by 'image may vary with workflow version').

Edit 4: Add third section on Uploading to Apollo with GFF3 and FASTA. Link to relevant workflow and give a few screenshots.

This is marked with low priority since the Apollo annotations tool will soon get some work done on it, and Apollo update may significantly expand flexibility of feature loading.