Git Product home page Git Product logo

Comments (6)

thermokarst avatar thermokarst commented on August 30, 2024

Hi @wasade, the tutorial (qiime2/docs#39) is slated for the February release cycle. Thanks!

from q2-feature-table.

wasade avatar wasade commented on August 30, 2024

So https://docs.qiime2.org/2.0.6/tutorials/table-filtering/ shouldn't be live?

from q2-feature-table.

wasade avatar wasade commented on August 30, 2024

For a little more context, the URL listed in the help text below is invalid

$ qiime feature-table filter-features --help
Usage: qiime feature-table filter-features [OPTIONS]

  Filter features from table based on frequency and/or metadata. Any samples
  with a frequency of zero after feature filtering will also be removed. If
  no value(s) are provided for max_frequency and/or max_samples, they will
  default to infinity (i.e., no maximum frequency and/or sample filter will
  be applied).

  The where parameter takes a SQLite WHERE clause. See the table filtering
  tutorial for additional detail:
  https://docs.qiime2.org/2.0.6/tutorials/table-filtering.html

Options:
  --i-table PATH                  Artifact: FeatureTable[Frequency]
                                  [required]
  --m-feature-metadata-file PATH  Metadata mapping file  [optional]
  --p-max-frequency INTEGER       [optional]
  --p-max-samples INTEGER         [optional]
  --p-min-frequency INTEGER       [default: 0]
  --p-min-samples INTEGER         [default: 0]
  --p-where TEXT                  [optional]
  --o-filtered-table PATH         Artifact: FeatureTable[Frequency]  [required
                                  if not passing --output-dir]
  --output-dir DIRECTORY          Output unspecified results to a directory
  --cmd-config PATH               Use config file for command options
  --verbose                       Display verbose output to stdout and/or
                                  stderr during execution of this action.
                                  [default: False]
  --help                          Show this message and exit.

from q2-feature-table.

thermokarst avatar thermokarst commented on August 30, 2024

Right, the tutorial is up there now (https://docs.qiime2.org/2.0.6/tutorials/table-filtering/), but the URL listed in the help text has an extra .html at the end. I was confused about what you were asking about initially. The fix will be to just drop the suffix in the help text URL. Also, I think this happened because the URL was specified before we actually had a tutorial in place, so this was a bit of a placeholder. Thanks!

from q2-feature-table.

thermokarst avatar thermokarst commented on August 30, 2024

Also, I totally spaced that we decided to update the 2.0.6 docs to include this tutorial. This makes sense though, because the functionality is present in the 2.0.6 release.

from q2-feature-table.

wasade avatar wasade commented on August 30, 2024

from q2-feature-table.

Related Issues (20)

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.