Giters
lenaschimmel
/
sc2rf
SARS-Cov-2 Recombinant Finder for fasta sequences
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Stargazers:
48
Watchers:
9
Issues:
32
Forks:
13
lenaschimmel/sc2rf Issues
Bug/question with --force-all-parents --clades all
Updated
2 years ago
Comments count
3
Release a version
Updated
2 years ago
Comments count
5
Bridging the gap between sc2rf result and Pangolin X* lineages
Updated
2 years ago
How to interpret BA.4/BA.5 list of mutations
Updated
2 years ago
GISAID XT recombinant not detected by sc2rf
Updated
2 years ago
Comments count
4
Option to ignore shared substitutions
Updated
2 years ago
Terminal Ns not recognized as missing
Updated
2 years ago
Comments count
1
--csvfile option does not work
Closed
2 years ago
Comments count
2
Find and use better source for typical mutations of lineages
Closed
2 years ago
Comments count
14
Crash related to tdqm
Closed
2 years ago
Comments count
4
Make tool pip-installable
Closed
2 years ago
Comments count
4
BUG: Problem using covSpectrum mutation share - Ns are treated as reference
Closed
2 years ago
Comments count
10
ENH: provide output optionally as csv/tsv for automated analysis/sharing
Closed
2 years ago
Comments count
28
ENH: Sort by breakpoint
Updated
2 years ago
ENH: Output full internal representation of analysis result for sharing without need for recomputation
Updated
2 years ago
Comments count
2
ENH: Accept MAPLE file as alternative to fasta
Updated
2 years ago
Deltacrons with NSP3 breakpoint
Updated
2 years ago
Comments count
17
ENH: Differentiate between clade defining mutations and optional mutations
Updated
2 years ago
Comments count
3
Have a look at the Δm, n, 2 statistic for breakpoint detection
Updated
2 years ago
Add relevant primer bed files and make sure the bed format is correctly interpreted
Updated
2 years ago
Issues with VT / ANSI color codes, especially on Windows/Ubuntu
Updated
2 years ago
Comments count
1
ENH: show progress bar, say how many files were read in, how processing is going
Closed
2 years ago
Comments count
2
ENH: repeat gene legend every say 30 samples in case of long list
Updated
2 years ago
Comments count
2
ENH: add spaces between genes rather than every 5 mutations
Updated
2 years ago
Comments count
1
ENH: Allow tool to run in a web browser
Updated
2 years ago
Comments count
4
Q: Why show all donors not just the relevant ones?
Closed
2 years ago
Comments count
6
Way to pipe results to png, txt files
Closed
2 years ago
Comments count
7
Fix or remove 21I and 21J
Updated
2 years ago
Comments count
11
Allow more file formats and/or access methods, i.e. Auspice v2 dataset JSON from nextstrain URLs
Updated
2 years ago
Write documentation on how to interpret the output
Updated
2 years ago
TypeError: unsupported operand type(s) for |: 'dict' and 'dict'
Closed
2 years ago
Comments count
1
Python version requirement 3.9
Closed
2 years ago
Comments count
2