theosanderson/taxonium issues and pull requests

#609 - docs: add AngieHinrichs as a contributor for code

Pull Request - State: closed - Opened by allcontributors[bot] 7 days ago - 2 comments

#608 - Add a new option --chronumental_add_inferred_date

Pull Request - State: closed - Opened by AngieHinrichs 7 days ago - 3 comments

#607 - usher_to_taxonium --chronumental: add date output as metadata-like value?

Issue - State: closed - Opened by AngieHinrichs 8 days ago - 2 comments

#606 - try vis

Pull Request - State: open - Opened by theosanderson 8 days ago - 1 comment

#605 - try to fix color bug

Pull Request - State: closed - Opened by theosanderson 8 days ago - 1 comment

#604 - feat: Color ramps

Pull Request - State: closed - Opened by theosanderson 10 days ago - 1 comment

#603 - color spectrum/scale for continuous values?

Issue - State: closed - Opened by AngieHinrichs 26 days ago - 6 comments

#602 - bump precommit

Pull Request - State: closed - Opened by theosanderson 3 months ago - 1 comment

#601 - Enforce that metadata key column is a string

Pull Request - State: closed - Opened by theosanderson 3 months ago - 1 comment

#600 - Integer strains break metadata in newick_to_taxonium

Issue - State: closed - Opened by joely-w 3 months ago - 1 comment

#599 - ENH: Add scale for y-axis, i.e. how many sequences per vertical cm

Issue - State: open - Opened by corneliusroemer 3 months ago

#598 - Add lineage annotations on internal branches

Issue - State: closed - Opened by corneliusroemer 4 months ago - 2 comments

#597 - Amino acid branch mutation duplicated on Usher tree

Issue - State: closed - Opened by corneliusroemer 4 months ago - 1 comment

#596 - Accept zstd compressed input files, in addition to gzip

Issue - State: open - Opened by corneliusroemer 4 months ago - 1 comment

#595 - doc: recommend explicit /usr/bin/xattr to prevent error

Pull Request - State: closed - Opened by corneliusroemer 4 months ago - 2 comments

#594 - Changing the default branch color and internal node visualization by setting configDict

Issue - State: open - Opened by UTNK 4 months ago - 2 comments

#593 - ENH: Selection-based search macros

Issue - State: open - Opened by J-Wall 4 months ago - 4 comments

#592 - Addition of a new SNP Distance Search function for the Cov2Tree

Pull Request - State: open - Opened by DLiarakos 4 months ago - 2 comments

#591 - how to transform taxonium to auspice?

Issue - State: closed - Opened by liamxg 5 months ago - 2 comments

#590 - need help to build big trees

Issue - State: closed - Opened by liamxg 5 months ago - 2 comments

#589 - Md links

Pull Request - State: closed - Opened by theosanderson 5 months ago - 1 comment

#588 - md_links

Pull Request - State: closed - Opened by theosanderson 5 months ago - 1 comment

#587 - Update SearchPanel.jsx

Pull Request - State: closed - Opened by theosanderson 5 months ago - 1 comment

#586 - add description for nextstrain

Pull Request - State: closed - Opened by theosanderson 5 months ago - 1 comment

#585 - Improve text display of light colours

Issue - State: open - Opened by theosanderson 5 months ago

#584 - Increasing outer bounds

Pull Request - State: closed - Opened by theosanderson 5 months ago - 1 comment

#584 - Increasing outer bounds

Pull Request - State: closed - Opened by theosanderson 5 months ago - 1 comment

#583 - How to set ladderizeTree in Taxonium React Component

Issue - State: closed - Opened by UTNK 5 months ago - 2 comments

#583 - How to set ladderizeTree in Taxonium React Component

Issue - State: closed - Opened by UTNK 5 months ago - 2 comments

#582 - Slanted lines in minimap

Issue - State: closed - Opened by corneliusroemer 6 months ago - 1 comment

#581 - Extracting mutation data from the jsonl tree

Issue - State: closed - Opened by Biophylo2001 6 months ago - 5 comments

#580 - Correct display of NS tree description

Pull Request - State: closed - Opened by theosanderson 6 months ago - 1 comment

#579 - Update useColor.jsx

Pull Request - State: closed - Opened by theosanderson 6 months ago - 1 comment

#576 - Problem creating JOSNL file with newick_to_taxonium

Issue - State: open - Opened by NicolaDM 7 months ago - 8 comments

#575 - MatUtils CLI to identify mutation spread in large populations

Issue - State: closed - Opened by Sanyukta2001 8 months ago - 4 comments

#573 - expand NS

Pull Request - State: closed - Opened by theosanderson 9 months ago - 1 comment

#573 - expand NS

Pull Request - State: closed - Opened by theosanderson 9 months ago - 1 comment

#572 - Parsing NS file

Issue - State: closed - Opened by Sanyukta2001 9 months ago - 1 comment

#572 - Parsing NS file

Issue - State: closed - Opened by Sanyukta2001 9 months ago - 1 comment

#571 - Update electron-release.yml

Pull Request - State: closed - Opened by theosanderson 9 months ago - 1 comment

#570 - Update electron-release.yml

Pull Request - State: closed - Opened by theosanderson 9 months ago - 1 comment

#570 - Update electron-release.yml

Pull Request - State: closed - Opened by theosanderson 9 months ago - 1 comment

#569 - pin biopython

Pull Request - State: closed - Opened by theosanderson 9 months ago - 1 comment

#568 - Jbrowse fix and update

Pull Request - State: open - Opened by amkram 10 months ago - 2 comments

#567 - Debug Nextstrain parsing for specific example

Issue - State: open - Opened by theosanderson 10 months ago

#566 - Upgrade to electron forge 7

Issue - State: closed - Opened by theosanderson 10 months ago - 1 comment

#565 - move taxonium component deps to dev

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#564 - fix formatting

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#563 - proxy input

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#562 - update

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#561 - Proxy

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#560 - add proxy

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#559 - Delete taxonium_component/craco.config.js

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#558 - Update README.md

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#557 - Create CONTRIBUTING.md

Pull Request - State: closed - Opened by theosanderson 10 months ago - 1 comment

#556 - Fix treenome tooltip zIndex issue

Pull Request - State: closed - Opened by theosanderson 11 months ago - 1 comment

#555 - Pop up displays are no longer coming to the front on Taxonium

Issue - State: closed - Opened by ucscbrianlee 11 months ago - 2 comments

#554 - Add a proxy to allow use of non-CORS URLs

Issue - State: closed - Opened by theosanderson 11 months ago

#553 - Update python-test.yml

Pull Request - State: closed - Opened by theosanderson 11 months ago - 1 comment

#552 - Update setup.cfg

Pull Request - State: closed - Opened by theosanderson 11 months ago - 1 comment

#551 - Update README.md

Pull Request - State: closed - Opened by theosanderson 11 months ago - 1 comment

#550 - Taxonium React Component Feedback

Issue - State: open - Opened by daniel-ji 11 months ago - 1 comment

#549 - remove cosign

Pull Request - State: closed - Opened by theosanderson 11 months ago - 1 comment

#548 - BUG: Tree disappearing and reappearing

Issue - State: closed - Opened by alex1770 12 months ago - 1 comment

#547 - Test cont

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#546 - Integration test v2

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#545 - Update python-test.yml

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#544 - add wd

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#543 - Update map view branch to master

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#542 - add playwright

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#541 - Add playwright tests

Issue - State: closed - Opened by theosanderson 12 months ago

#540 - Cleanup ci

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#539 - Delete .github/selenium_tests directory

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#538 - Fix about overlay

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#537 - Controls have higher z-index than acknowledgements modal

Issue - State: closed - Opened by theosanderson 12 months ago

#536 - Add WIP map view

Pull Request - State: open - Opened by simonbukin 12 months ago - 9 comments

#535 - Update App.jsx

Pull Request - State: closed - Opened by theosanderson 12 months ago - 1 comment

#534 - Add map view

Pull Request - State: closed - Opened by simonbukin about 1 year ago - 13 comments

#533 - Big searches

Issue - State: open - Opened by theosanderson about 1 year ago