NPLinker nplinker issues

NPLinker / nplinker

A python framework for data mining microbial natural products by integrating genomics and metabolomics data

https://nplinker.github.io/nplinker

Apache License 2.0

16 stars 10 forks source link

issues

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Verify the support of WSL

#274 CunliangGeng closed 3 days ago
1
add names of bigscape classes

#273 CunliangGeng closed 1 month ago
3
Merge bigscape loaders to one?

#272 CunliangGeng opened 2 months ago
0
Use bigscape version in loaders

#271 CunliangGeng opened 2 months ago
0
update doc for bigscape

#270 CunliangGeng closed 1 month ago
3
add filter method to LinkGraph

#269 CunliangGeng closed 2 months ago
5
Fix code scanning alert - Token-Permissions

#268 CunliangGeng closed 2 months ago
1
Add OSSF Scorecard action and badge

#267 CunliangGeng closed 2 months ago
2
improve docstrings

#266 CunliangGeng closed 2 months ago
4
Select subset of the data

#265 gcroci2 closed 2 months ago
2
fix tabular file header detection

#264 CunliangGeng closed 2 months ago
3
simplify error check in unit tests

#263 CunliangGeng closed 2 months ago
3
add warning for failed antismash downloads

#262 CunliangGeng closed 2 months ago
3
check disk space before downloading

#261 CunliangGeng closed 2 months ago
3
update docs

#260 CunliangGeng closed 2 months ago
2
improving type hints and usage of abc

#259 CunliangGeng closed 2 months ago
3
add pickling

#258 CunliangGeng closed 3 months ago
3
fix mypy and ruff errors

#257 CunliangGeng closed 3 months ago
4
refactor NPLinker class

#256 CunliangGeng closed 3 months ago
3
rename `molfam` to `mf` to uniform the abbreviation for MolecularFamily

#255 CunliangGeng closed 3 months ago
3
refactor MetcalfScoring methods

#254 CunliangGeng closed 3 months ago
3
use uniformed attribute name `id`

#253 CunliangGeng closed 3 months ago
2
Add LinkGraph to replace ObjectLink and LinkCollection

#252 CunliangGeng closed 3 months ago
2
Run bigscape v2

#251 adraismawur closed 2 months ago
11
merge DataLinks `get_common_strains` to ObjectLink

#250 CunliangGeng closed 3 months ago
2
merge DataLinks to MetcalfScoring class

#249 CunliangGeng closed 3 months ago
2
merge LinkFinder to MetcalfScoring class

#248 CunliangGeng closed 3 months ago
2
add abstract base class for scoring methods

#247 CunliangGeng closed 3 months ago
2
Specify config file explicitly for initializing NPLinker

#246 CunliangGeng closed 3 months ago
2
fix empty caplog

#245 CunliangGeng closed 3 months ago
2
update docs and readme

#244 CunliangGeng closed 3 months ago
2
refactor logging control

#243 CunliangGeng closed 3 months ago
2
Podp: not all genome IDs are in antismashDB

#242 liannette closed 2 months ago
1
add default output path

#241 CunliangGeng closed 5 months ago
3
rename globals.py to defaults.py

#240 CunliangGeng closed 5 months ago
3
Fix locations of attributes docstrings

#239 CunliangGeng closed 5 months ago
2
check format and typing only on changed files

#238 CunliangGeng closed 5 months ago
2
Data size warnings / checks when installing and using nplinker package

#237 justinjjvanderhooft closed 2 months ago
1
remove static typings from Returns in docstrings

#236 CunliangGeng closed 5 months ago
2
set ruff to not check docstrings of test files

#235 CunliangGeng closed 5 months ago
2
Support Bigscape v2 data

#234 adraismawur closed 5 months ago
6
move dependencies to pyproject.toml file

#233 CunliangGeng closed 5 months ago
2
improvement on docs

#232 CunliangGeng closed 4 months ago
1
Add user tutorials

#231 CunliangGeng closed 5 months ago
3
update dev env settings for vscode

#230 CunliangGeng closed 5 months ago
2
delete .editorconfig

#229 CunliangGeng closed 5 months ago
1
update readme files

#228 CunliangGeng closed 5 months ago
2
enable github actions for PRs on all branches

#227 CunliangGeng closed 5 months ago
2
update dependencies

#226 CunliangGeng closed 5 months ago
2
remove unused mkdocs settings

#225 CunliangGeng closed 5 months ago
1