Ecosyste.ms: Issues

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GitHub / lenaschimmel/sc2rf issues and pull requests

#35 - Bug/question with --force-all-parents --clades all

Issue - State: open - Opened by MarieLataretu about 2 years ago - 3 comments

#33 - Minor changes to readme for version

Pull Request - State: open - Opened by SVN-PhD over 2 years ago

#32 - How to interpret BA.4/BA.5 list of mutations

Issue - State: open - Opened by jpflorido over 2 years ago

#31 - GISAID XT recombinant not detected by sc2rf

Issue - State: open - Opened by BenjaminDelisle over 2 years ago - 4 comments

#30 - Option to ignore shared substitutions

Issue - State: open - Opened by ktmeaton over 2 years ago

#29 - Terminal Ns not recognized as missing

Issue - State: open - Opened by ktmeaton over 2 years ago - 1 comment

#28 - --csvfile option does not work

Issue - State: closed - Opened by think-o almost 3 years ago - 2 comments

#27 - Crash related to tdqm

Issue - State: closed - Opened by lenaschimmel almost 3 years ago - 4 comments

#26 - ENH: Sort by breakpoint

Issue - State: open - Opened by corneliusroemer almost 3 years ago

#25 - Proposed fix for #19 - output CSV

Pull Request - State: closed - Opened by ArtPoon almost 3 years ago - 13 comments

#24 - ENH: Accept MAPLE file as alternative to fasta

Issue - State: open - Opened by corneliusroemer almost 3 years ago

#23 - BUG: Problem using covSpectrum mutation share - Ns are treated as reference

Issue - State: closed - Opened by corneliusroemer almost 3 years ago - 10 comments

#19 - ENH: provide output optionally as csv/tsv for automated analysis/sharing

Issue - State: closed - Opened by corneliusroemer almost 3 years ago - 28 comments

#18 - ENH: repeat gene legend every say 30 samples in case of long list

Issue - State: open - Opened by corneliusroemer almost 3 years ago - 2 comments

#17 - ENH: add spaces between genes rather than every 5 mutations

Issue - State: open - Opened by corneliusroemer almost 3 years ago - 1 comment

#15 - ENH: Differentiate between clade defining mutations and optional mutations

Issue - State: open - Opened by corneliusroemer almost 3 years ago - 3 comments

#14 - Q: Why show all donors not just the relevant ones?

Issue - State: closed - Opened by corneliusroemer almost 3 years ago - 6 comments

#13 - ENH: Allow tool to run in a web browser

Issue - State: open - Opened by corneliusroemer almost 3 years ago - 4 comments

#11 - Write documentation on how to interpret the output

Issue - State: open - Opened by lenaschimmel almost 3 years ago

#10 - Fix or remove 21I and 21J

Issue - State: open - Opened by lenaschimmel almost 3 years ago - 11 comments

#9 - Way to pipe results to png, txt files

Issue - State: closed - Opened by ghost almost 3 years ago - 7 comments

#8 - Deltacrons with NSP3 breakpoint

Issue - State: open - Opened by ktmeaton almost 3 years ago - 17 comments

#7 - TypeError: unsupported operand type(s) for |: 'dict' and 'dict'

Issue - State: closed - Opened by arodzh-sudo almost 3 years ago - 1 comment

#6 - Python version requirement 3.9

Issue - State: closed - Opened by benkraj almost 3 years ago - 2 comments

#5 - Release a version

Issue - State: open - Opened by erinyoung almost 3 years ago - 5 comments

#4 - Find and use better source for typical mutations of lineages

Issue - State: closed - Opened by lenaschimmel almost 3 years ago - 14 comments

#3 - Make tool pip-installable

Issue - State: closed - Opened by corneliusroemer almost 3 years ago - 4 comments

#2 - Issues with VT / ANSI color codes, especially on Windows/Ubuntu

Issue - State: open - Opened by lenaschimmel almost 3 years ago - 1 comment

#1 - Update README.md

Pull Request - State: closed - Opened by tsymalla almost 3 years ago - 1 comment