scverse/pertpy

Issues

• TypeError: unhashable type: 'numpy.ndarray' when running perturbation_space

  #669 opened 12 days ago by ernesto-iacucci
  3

• possible to compute distances on a subset of genes?

  #640 opened 4 months ago by aterceros
  3

• Reproducibility of mixscape

  #671 opened 2 months ago by jesswhitts
  7

• MIXSCAPE - ms.plot_barplot(mdata["rna"], guide_rna_column="NT") shows no graph output with papalexi_2021 provided data

  #659 opened 18 days ago by VittoriaDBocchi
  11

• Import Error: cannot import name 'AlignedViewMixin' from 'anndata._core.aligned_mapping'

  #650 opened 4 months ago by LJZYaaa
  7

• Extend PyDESeq2 class to support arbitrary contrasts and designs

  #610 opened 7 months ago by grst
  3

• Version mismatch

  #678 opened 2 months ago by HelloWorldLTY
  3

• Incorporating memento for more efficient and diverse differential analyses

  #676 opened 2 months ago by SNOL2
  1

• ImportError: cannot import name 'maps' from 'jax.experimental'

  #675 opened 2 months ago by timslittle
  2

• CompositionalModel2's plot_effects_barplot() shows the wrong covariate in the title in certain situations.

  #674 opened 2 months ago by reemagit
  7

• Implement other CRISPR guide assignment methods

  #657 opened 3 months ago by stefanpeidli
  1

• target col naming

  #673 opened 2 months ago by Zethson
  0

• AttributeError: jax.core.Shape is deprecated. Use Shape = Sequence[int | Any].

  #663 opened 2 months ago by muntajihad
  3

• Dialogue feature space

  #668 opened 2 months ago by Nusob888
  1

• How to plot the 0 value during different comparisons?

  #598 opened 3 months ago by mainharryHR
  12

• Feature pertpy use-cases in our tutorial

  #642 opened 4 months ago by Zethson
  1

• Improve UX for metadata module

  #664 opened 3 months ago by Lilly-May
  0

• Python 3.12 support

  #643 opened 3 months ago by Zethson
  3

• Problem with R packages

  #662 opened 3 months ago by VladimirShitov
  2

• Got an error when using 'random_forest_regressor' estimator

  #655 opened 3 months ago by Guo-lingyun
  1

• Pertpy Plot Coda Module Gone?

  #656 opened 3 months ago by alexjimenez99
  3

• AttributeError: module 'pertpy.plot' has no attribute 'ag'

  #661 opened 3 months ago by sunjiahe-hub
  2

• More/better guide assignment methods

  #628 opened 3 months ago by Zethson
  1

• Bootstrap not running

  #641 opened 4 months ago by aterceros
  9

• Remove anndata pin after pydeseq2 bug fix

  #652 opened 4 months ago by Zethson
  0

• Import fail due to missing optional dependencies

  #645 opened 4 months ago by andr-kun
  3

• scCODA convergence issue for continous covairables

  #597 opened 5 months ago by Marwansha
  10

• test triangle equality for mahalanobis not always running through

  #639 opened 5 months ago by Zethson
  0

• Error while using ms.mixscape - ValueError: Input X contains NaN.

  #617 opened 5 months ago by VittoriaDBocchi
  11

• Got an error when using 'random_forest_regressor' estimator

  #634 opened 5 months ago by Guo-lingyun
  3

• Implement MiloDE (diff. expr. testing on top of milo framework)

  #635 opened 5 months ago by stefanpeidli
  0

• NaNs or infs in array

  #633 opened 5 months ago by ShreyParikh07
  2

• Unable to import pertpy due to SymPy error

  #593 opened 7 months ago by dmj6288
  5

• Can't import pertpy owing to NameError!!!

  #595 opened 7 months ago by kakkboy
  7

• Unable to import package.

  #632 opened 6 months ago by thomasgaudelet
  2

• import error pertpy 0.6.0

  #631 opened 6 months ago by m21camby
  6

• test_drug_dgidb - KeyError: 'drug_claim_name'

  #624 opened 6 months ago by Zethson
  1

• Update docs with new comparison metrics

  #630 opened 6 months ago by wxicu
  0

• Distance Metrics Enhancement: New metrics, 3-way-comparisons, Bootstrapping

  #603 opened 6 months ago by eroell
  0

• FindConservedMarkers implementaion

  #629 opened 6 months ago by SNOL2
  1

• Improve DE tutorial

  #615 opened 7 months ago by grst
  1

• Add Hagai dataset loader

  #626 opened 7 months ago by Zethson
  0

• Fixing incorrect y-axis in volcano plot

  #621 opened 7 months ago by pakiessling
  1

• OverflowError: cannot convert float infinity to integer with ms.perturbation_signature Method in Mixscape

  #605 opened 7 months ago by Zethson
  2

• Check whether perturbation space metrics are available in the public API

  #606 opened 7 months ago by Zethson
  1

• Add linear mixed effects model to DE interface

  #614 opened 7 months ago by grst
  0

• Parallelize DE methods that support it

  #613 opened 7 months ago by grst
  0

• Add diagnostic output for `model.cond`

  #612 opened 7 months ago by grst
  0

• HTML widget for DE Model classes

  #611 opened 7 months ago by grst
  0

• How to use Pertpy after subsetting the cell types?

  #600 opened 7 months ago by mainharryHR
  4