nextstrain/docs.nextstrain.org

Issues

• Deprecation: Removal of Sphinx context injection at build time

  #216 opened 5 months ago by victorlin
  11

• Standardize and clarify terminology

  #100 opened 4 months ago by victorlin
  1

• BUG: `Edit on Github` goes to 404 for transcluded pages

  #152 opened 2 years ago by corneliusroemer
  1

• Decide whether to use nextstrain meta package from Bioconda with pinned versions for installation docs

  #56 opened 5 months ago by huddlej
  1

• Clades in Sars-2 tutorial are out of date

  #65 opened 5 months ago by corneliusroemer
  1

• nextstrain quickstart guide - several issues and need of updates

  #49 opened 5 months ago by davidcroll
  2

• DOC: Add miniconda install scripts to macOS (and maybe Windows) docs

  #121 opened 5 months ago by corneliusroemer
  8

• Documentation for creating a pathogen repo

  #188 opened a year ago by joverlee521
  3

• Docs build failed on default branch

  #214 opened 5 months ago by joverlee521
  2

• Update creating-an-ingest-workflow docs to new augur curate commands

  #212 opened 5 months ago by joverlee521
  0

• Read the docs build failures

  #209 opened 6 months ago by jameshadfield
  11

• how to get Latest clades.tsv for ( augur clades )

  #208 opened 7 months ago by kiranpatil222
  3

• Check/improve installation docs

  #82 opened 8 months ago by victorlin
  1

• Include Nextstrain tutorial videos in docs

  #78 opened 3 years ago by eharkins
  1

• Automate RTD build process in GH CI

  #205 opened 8 months ago by genehack
  0

• Document manual RTD process in README

  #204 opened 8 months ago by genehack
  0

• Improve experience between umbrella docs project and subprojects

  #203 opened 8 months ago by victorlin
  1

• Update install docs to indicate supported/required Python version

  #201 opened 8 months ago by genehack
  1

• Stop fetching docs from subprojects

  #200 opened 8 months ago by victorlin
  0

• Add tutorials for ingest pipelines

  #179 opened 9 months ago by joverlee521
  6

• Update glossary terms `workflow` and `workflow repository`,

  #190 opened 9 months ago by joverlee521
  1

• Update metadata section in Augur to Auspice

  #184 opened a year ago by joverlee521
  2

• make livehtml: infinite loop with sphinx-autobuild-2024.2.4

  #193 opened 9 months ago by joverlee521
  1

• Add docs for "tiered" subsampling

  #187 opened 10 months ago by joverlee521
  1

• Docs for different methods to annotate AA muts

  #189 opened a year ago by joverlee521
  2

• Update entropy panel documentation

  #169 opened a year ago by jameshadfield
  0

• Add documentation on how to add vaccine strain annotations as X's on a Nextstrain tree

  #176 opened a year ago by j23414
  1

• Make section headings more navigable

  #161 opened 2 years ago by victorlin
  0

• Make installation path for Apple silicon users less complicated

  #127 opened 2 years ago by victorlin
  2

• Add instructions for users who have already installed Conda

  #125 opened 2 years ago by corneliusroemer
  7

• Decide how to bootstrap Python environments for the Nextstrain CLI installation

  #57 opened 2 years ago by huddlej
  2

• Document how to include bootstrap support in a tree

  #144 opened 2 years ago by huddlej
  0

• Native install of nextstrain tool suite sourced from Conda is failing on Mac Pro with Apple M1 chip

  #109 opened 3 years ago by alliblk
  13

• Document "measurements" data format

  #90 opened 2 years ago by joverlee521
  0

• Add note about how to symlink to Windows storage from Linux in WSL installation guide

  #114 opened 2 years ago by huddlej
  6

• Dead link 'Edit on Github' on all 'Explore SARS-CoV-2 evolution' subpages

  #64 opened 2 years ago by corneliusroemer
  1

• drawing phylogentic tree and map using epidemiological data instead of genetic data

  #118 opened 2 years ago by jielab
  1

• Streamline native installation steps for subproject references

  #96 opened 2 years ago by victorlin
  4

• Add instructions on "starting Nextstrain"

  #108 opened 3 years ago by victorlin
  1

• Lists not rendering

  #97 opened 3 years ago by victorlin
  1

• Nextstrain conda installation using mamba doesn't work

  #93 opened 3 years ago by abattenhouse
  7

• Add custom 404 page

  #95 opened 3 years ago by victorlin
  0

• Remove outdated SARS-CoV-2 pages

  #91 opened 3 years ago by tsibley
  4

• Readthedocs version selector pops up at unexpected side of screen

  #76 opened 3 years ago by corneliusroemer
  3

• Add Huddleston et al https://joss.theoj.org/papers/10.21105/joss.02906 to the docs/footer

  #66 opened 3 years ago by rneher
  1

• Document "node data" JSON format

  #58 opened 4 years ago by huddlej
  0

• Several new suggestions for the "Explore Zika virus evolution" tutorial

  #54 opened 4 years ago by davidcroll
  0

• Make the meta-title a bit more specific

  #46 opened 4 years ago by summercms
  1

• documentation for clade naming seems to have fallen behind common practice

  #43 opened 4 years ago by wpqs
  0

• Deduplicate clades pages

  #35 opened 4 years ago by eharkins
  1