Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / theislab/pertpy issues and pull requests
#287 - Attrribute error: module 'pertpy.tools' has no attribute 'Sccoda'
Issue -
State: closed - Opened by ngvananh2508 about 1 year ago
- 8 comments
Labels: bug
#286 - Readd DIALOGUE with proper attribution
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#285 - pertpy_scCODA for scATAC-dataset?
Issue -
State: closed - Opened by ronghai-li about 1 year ago
- 2 comments
Labels: enhancement
#284 - Attribute scperturb a bit better
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#283 - Attribute Error: module "pertpy" has no attribute 'data'
Issue -
State: closed - Opened by ngvananh2508 about 1 year ago
- 10 comments
Labels: bug
#282 - [DEPENDABOT]: Bump decoupler from 1.3.4 to 1.4.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#281 - [DEPENDABOT]: Bump rich from 13.3.5 to 13.4.1
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#280 - [DEPENDABOT]: Bump pyupgrade from 3.4.0 to 3.6.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#279 - 'pertpy.tools' has no attribute 'Sccoda'
Issue -
State: closed - Opened by connerlambden about 1 year ago
- 2 comments
Labels: bug
#278 - [DEPENDABOT]: Bump numpyro from 0.11.0 to 0.12.1
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#277 - [DEPENDABOT]: Bump coverage from 7.2.5 to 7.2.6
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
- 1 comment
Labels: DEPENDABOT
#276 - [DEPENDABOT]: Bump sphinx-last-updated-by-git from 0.3.4 to 0.3.5
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#275 - [DEPENDABOT]: Bump requests from 2.30.0 to 2.31.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#274 - scCODA vs Pertpy
Issue -
State: closed - Opened by connerlambden about 1 year ago
- 1 comment
Labels: bug
#273 - [DEPENDABOT]: Bump codecov/codecov-action from 3.1.3 to 3.1.4
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#272 - [DEPENDABOT]: Bump pre-commit from 3.3.1 to 3.3.2
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#271 - [DEPENDABOT]: Bump furo from 2023.3.27 to 2023.5.20
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#270 - [DEPENDABOT]: Bump scvi-tools from 0.19.0 to 0.20.3
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#269 - Running the scCODA model inference (pt.tl.Sccoda.run_nuts()) gives AssertionError: size of plate should be positive
Issue -
State: closed - Opened by Zethson about 1 year ago
- 8 comments
#266 - Try to speed up cell line tests through caching
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#265 - [DEPENDABOT]: Bump typeguard from 3.0.2 to 4.0.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#264 - [DEPENDABOT]: Bump mypy from 1.2.0 to 1.3.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#263 - [DEPENDABOT]: Bump plotnine from 0.10.1 to 0.12.1
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#262 - gpu not detectable
Issue -
State: closed - Opened by hai178912522 about 1 year ago
- 4 comments
#261 - LLVM ERROR: can not load pertpy with rpy2 environment
Issue -
State: closed - Opened by kvshams about 1 year ago
- 3 comments
Labels: bug
#260 - [DEPENDABOT]: Bump protobuf from 4.22.3 to 4.22.4
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#259 - [DEPENDABOT]: Bump numba from 0.56.4 to 0.57.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#258 - [DEPENDABOT]: Bump safety from 2.3.4 to 2.3.5
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#257 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.5 to 1.8.6
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#256 - Reconsider CelllineMetadata naming
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#255 - "Unknown environment 'tabular'" error in some tutorials
Issue -
State: closed - Opened by VladimirShitov about 1 year ago
- 2 comments
Labels: bug
#254 - Move getinfo functions into their own module for MetaData
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#253 - Use Literals for MetaData options
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#252 - [DEPENDABOT]: Bump coverage from 7.2.3 to 7.2.5
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#251 - [DEPENDABOT]: Bump rich from 13.3.4 to 13.3.5
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#250 - [DEPENDABOT]: Bump protobuf from 3.20.1 to 4.22.3
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#249 - [DEPENDABOT]: Bump safety from 2.3.4 to 2.3.5
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#248 - [DEPENDABOT]: Bump sphinx from 6.1.3 to 6.2.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#247 - [DEPENDABOT]: Bump pygments from 2.15.0 to 2.15.1
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#246 - [DEPENDABOT]: Bump codecov/codecov-action from 3.1.2 to 3.1.3
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#245 - Support Pandas 2.0
Issue -
State: closed - Opened by Zethson about 1 year ago
Labels: enhancement
#244 - Implement perturbation space
Issue -
State: closed - Opened by Zethson about 1 year ago
- 1 comment
Labels: enhancement
#243 - [DEPENDABOT]: Bump adjusttext from 0.7.3 to 0.8
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#242 - [DEPENDABOT]: Bump scikit-misc from 0.1.4 to 0.2.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#241 - [DEPENDABOT]: Bump sphinx-gallery from 0.10.1 to 0.13.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#240 - [DEPENDABOT]: Update sphinx-gallery requirement from <0.11 to <0.14 in /docs
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
- 1 comment
Labels: DEPENDABOT
#239 - [DEPENDABOT]: Bump codecov/codecov-action from 3.1.1 to 3.1.2
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#238 - Color option in da_beeswarm
Issue -
State: closed - Opened by nroak about 1 year ago
- 1 comment
Labels: enhancement, milo
#237 - docstring enhancement for sample identifiers
Pull Request -
State: closed - Opened by johannesostner about 1 year ago
- 1 comment
Labels: bug
#236 - [DEPENDABOT]: Bump pytest from 7.2.2 to 7.3.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#235 - [DEPENDABOT]: Bump numpyro from 0.10.1 to 0.11.0
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#234 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.4 to 1.8.5
Pull Request -
State: closed - Opened by dependabot[bot] about 1 year ago
Labels: DEPENDABOT
#233 - multilevel_modeling fails when confounder set to None
Issue -
State: closed - Opened by tessadgreen about 1 year ago
Labels: bug, DIALOGUE
#232 - multilevel_modeling fails if given an n_counts_key with spaces
Issue -
State: closed - Opened by tessadgreen about 1 year ago
- 2 comments
Labels: bug, DIALOGUE
#231 - multilevel_modeling fails if given an AnnData with .X type ndarray:
Issue -
State: closed - Opened by tessadgreen about 1 year ago
- 1 comment
Labels: bug, DIALOGUE
#230 - Look into Raghavan et al
Issue -
State: closed - Opened by Zethson over 1 year ago
- 2 comments
Labels: enhancement
#229 - [DEPENDABOT]: Bump safety from 2.3.4 to 2.3.5
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#228 - [DEPENDABOT]: Bump arviz from 0.14.0 to 0.15.1
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#227 - [DEPENDABOT]: Bump adjusttext from 0.7.3 to 0.8
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#226 - [DEPENDABOT]: Update sphinx-gallery requirement from <0.11 to <0.13 in /docs
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
- 1 comment
Labels: DEPENDABOT
#225 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.3 to 1.8.4
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#224 - Error with multiple covariates using pertypy.tl.Sccoda()
Issue -
State: closed - Opened by schroeme over 1 year ago
- 8 comments
Labels: bug
#223 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.8.1 to 1.8.3
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#222 - improve mixscape documentation & fix a bug
Pull Request -
State: closed - Opened by xinyuejohn over 1 year ago
Labels: bug
#221 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.7.1 to 1.8.1
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#220 - Import problem with poetry install
Issue -
State: closed - Opened by tessadgreen over 1 year ago
- 2 comments
Labels: bug
#219 - Mixscape data type error
Issue -
State: closed - Opened by AlejandroTL over 1 year ago
- 1 comment
Labels: bug
#218 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.6.4 to 1.7.1
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT
#217 - Feature/distances
Pull Request -
State: closed - Opened by Zethson over 1 year ago
- 2 comments
Labels: enhancement, chore
#216 - Feature/simplification
Pull Request -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement
#215 - AttributeError: module 'pertpy.tools' has no attribute 'Milopy'
Issue -
State: closed - Opened by nroak over 1 year ago
- 1 comment
Labels: bug
#214 - TypeError: arguments did not match any overloaded call and QImage(variant: Any): too many arguments
Issue -
State: closed - Opened by nroak over 1 year ago
- 3 comments
Labels: bug
#213 - Not compatible with latest Python 3.10+
Issue -
State: closed - Opened by nroak over 1 year ago
- 2 comments
Labels: bug
#212 - Fix #211
Pull Request -
State: closed - Opened by Moomboh over 1 year ago
#211 - `calculate_multifactor_PMD()` adds `int` keys to `.obs` leading to error on `adata.write_h5ad()`
Issue -
State: closed - Opened by Moomboh over 1 year ago
- 1 comment
Labels: bug
#210 - clearer dataset requirements for mixscape
Issue -
State: closed - Opened by marcus-r-kelly over 1 year ago
- 6 comments
Labels: enhancement
#209 - Add up_down_only option
Pull Request -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement
#208 - fix #207 ete3 warning masks other ImportErrors
Pull Request -
State: closed - Opened by Moomboh over 1 year ago
- 2 comments
#207 - ete3 warning masks other ImportErrors
Issue -
State: closed - Opened by Moomboh over 1 year ago
Labels: bug
#206 - Fix docs ete3
Pull Request -
State: closed - Opened by Zethson over 1 year ago
Labels: bug
#205 - Readding ete3
Pull Request -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement
#204 - Refactor coda stuff into coda subfolder
Issue -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement
#203 - Update _dialogue.py
Pull Request -
State: closed - Opened by tessadgreen over 1 year ago
Labels: bug
#202 - fixed celltype_key
Pull Request -
State: closed - Opened by tessadgreen over 1 year ago
Labels: bug
#201 - Install fails on M1 macs
Issue -
State: closed - Opened by tessadgreen over 1 year ago
- 18 comments
Labels: bug
#200 - Rename Augurpy to Augur
Issue -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement
#199 - Add initial DIALOGUE1
Pull Request -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement, chore
#198 - scCODA bugfix: duplicates in covariate_obs
Pull Request -
State: closed - Opened by Zethson over 1 year ago
Labels: bug, enhancement
#197 - Improve dataloader descriptions
Issue -
State: closed - Opened by Zethson over 1 year ago
Labels: enhancement
#196 - changes default settings of coda and milo
Pull Request -
State: closed - Opened by xinyuejohn over 1 year ago
Labels: bug
#195 - fix mixscape default setting of layer
Pull Request -
State: closed - Opened by xinyuejohn over 1 year ago
- 1 comment
Labels: bug
#194 - Guide assignment
Pull Request -
State: closed - Opened by moinfar over 1 year ago
- 1 comment
Labels: enhancement, chore
#193 - Solve pre-commit prettier and isort version incompatibility issues
Pull Request -
State: closed - Opened by moinfar over 1 year ago
- 1 comment
#192 - Reversed labele
Issue -
State: closed - Opened by tshiihashi over 1 year ago
- 5 comments
Labels: bug
#191 - Link to documentation is outdated
Issue -
State: closed - Opened by VladimirShitov over 1 year ago
- 1 comment
Labels: bug
#190 - added list option for sample_identifier in load
Pull Request -
State: closed - Opened by Zethson over 1 year ago
- 1 comment
Labels: enhancement
#189 - Better support for DE in scverse
Issue -
State: open - Opened by Zethson over 1 year ago
- 16 comments
Labels: enhancement
#188 - integrate scCODA and tascCODA
Pull Request -
State: closed - Opened by xinyuejohn over 1 year ago
- 6 comments
Labels: enhancement, chore
#187 - Add cell line annotation
Pull Request -
State: closed - Opened by wxicu over 1 year ago
#186 - [DEPENDABOT]: Bump pypa/gh-action-pypi-publish from 1.6.1 to 1.6.4
Pull Request -
State: closed - Opened by dependabot[bot] over 1 year ago
Labels: DEPENDABOT