KTIMPORTMETAREP-EC(1)

✨ NAME ✨

ktImportMETAREP-EC — the lil tool that lets you explore hierarchical metagenomic data with zoomable pie charts 🥧🦋 (yes, in the User Commands manual, bestie, we're fancy like that)

💖 DESCRIPTION 💖

Okay so picture this: it creates a Krona chart of abundances of EC (Enzyme Commission) numbers in METAREP data folders. That's the whole gig. And heads up — by default, queries with no EC number will be ignored (peep -i if you want them in 👀).

🌸 How you call it

ktImportMETAREP-EC \
       [options] \
       metarep_folder_1[,name_1] \
       [metarep_folder_2[,name_2]] \
       ...

🎀 The arguments, explained with love

• metarep_folder — an unpacked METAREP data folder. By default, separate datasets will be created for each input (check [-c] if you'd rather not).
• name — a name to show in the list of datasets in the Krona chart (only matters if multiple input files are present and [-c] is not specified). By default, the basename of the file will be used. no thoughts, just basename 💅

🧚 The options, aka the fun part

• -o <string> — Output file name. [Default: 'metarep-ec.krona.html']
• -n <string> — Name of the highest level. [Default: 'root']
• -c — Combine data from each file, rather than creating separate datasets within the chart. one chart, one vibe 🔥
• -i — Include a wedge for queries with no hits. don't leave them out, they're trying their best 😭
• -d <integer> — Maximum depth of wedges to include in the chart.
• -u <string> — URL of Krona resources to use instead of bundling them with the chart (e.g. "http://krona.sourceforge.net"). Reduces size of charts and allows updates, though charts will not work without access to this URL. So like... smaller and updatable, but dependent. choose your fighter 🫶
• -qp <string> — Url to send query IDs to (instead of listing them) for each wedge. The query IDs will be sent as a comma separated list in the POST variable "queries", with the current dataset index (from 0) in the POST variable "dataset". The url can include additional variables encoded via GET.
• -v — Verbose. she's chatty, we love her 💬

and that's the whole page, bestie — go make some zoomable pie charts, you absolute icon 👑

signing off from the User Commands manual: ktImportMETAREP-EC 2.8, dated June 2021 🌈💜 periodt.