dpeerlab/Palantir

Issues

• Error "at least one array or dtype is required" when running run_palantir

  #84 opened a year ago by emanuelavilla
  5

• Diffusion Component Loadings

  #142 opened 2 days ago by wbrett87
  1

• Problem with importing the library

  #140 opened 19 days ago by HeleneHemmer
  5

• Gene expression trends

  #141 opened 25 days ago by DAOl44732
  9

• KeyError: 'branch_masks not found in ad.obsm'

  #138 opened a month ago by simonekats
  5

• ZeroDivisionError: integer division or modulo by zero

  #139 opened a month ago by simonekats
  2

• No agreeing fate names found for .obsm['palantir_fate_probabilities'] and .obsm['branch_masks'].

  #137 opened 2 months ago by wangjiawen2013
  2

• About the number of eigenvectors

  #135 opened 3 months ago by yuntianzhishang
  2

• Multithreading issue with palantir.utils.run_magic_imputation()

  #133 opened 4 months ago by gighuarhguggg45
  8

• ImportError: cannot import name 'config' from 'jax.config' (/home/william/mambaforge/envs/palantir/lib/python3.12/site-packages/jax/config.py)

  #136 opened 3 months ago by wbrett87
  3

• plot_gene_trend

  #131 opened 4 months ago by yitengfei120011
  10

• Adjust x-axis for pseudotime gene expression plots

  #134 opened 4 months ago by andrewsong777
  3

• Error while running plot_gene_trends

  #118 opened 4 months ago by ryanhchung
  3

• Cannot install and run Palantir on Jupyter notebook

  #132 opened 4 months ago by andrewsong777
  3

• Error while running plot_palantir_results

  #130 opened 4 months ago by Yansr3
  3

• `AttributeError: 'AnnData' object has no attribute 'values'` in the tutorial notebook `Palantir_sample_notebook.ipynb`

  #129 opened 5 months ago by danli349
  2

• how to choose “start_cell”

  #128 opened 5 months ago by Xyihang
  2

• branch probabilities don't equal to 1

  #127 opened 6 months ago by wangjiawen2013
  3

• AttributeError: module 'palantir.plot' has no attribute 'plot_trajectory'

  #126 opened 6 months ago by Xyihang
  2

• IndexError in run_diffusion_maps

  #108 opened a year ago by shneyour
  2

• how to compare with other algorithm(monocle,TSCAN)？

  #121 opened 7 months ago by handesome
  4

• palantier + py3.7+ typing loading error

  #125 opened 7 months ago by dxl3742
  1

• type KeyError with new v1.3.1: output from determine_multiscale_space

  #124 opened 8 months ago by zktuong
  6

• installation issue

  #122 opened 8 months ago by haircell
  5

• Scanpy Integration Not Working with 1.3.0

  #119 opened 9 months ago by dgodovich
  2

• findfont: Font family ['Raleway'] not found. Falling back to DejaVu Sans.

  #117 opened 10 months ago by zhouzhendiao
  2

• Runtime error during import of Palantir

  #115 opened 10 months ago by 16nikita
  6

• Error while running run_magic_imputation

  #113 opened a year ago by aditisk
  2

• Seaborn

  #111 opened a year ago by ManuSetty
  1

• palantir don't find values inside anndata

  #110 opened a year ago by rdesantis90
  2

• Issue with tsne

  #100 opened a year ago by st4302
  1

• finding start cell and findfont error

  #105 opened a year ago by Donovan-Correa
  7

• compute_gene_trends throws ValueError: X data must not contain Inf nor NaN

  #98 opened a year ago by widsquid
  45

• Is it possible to run palantir on batch corrected data?

  #104 opened a year ago by jesswhitts
  2

• pr_pseudotime result triming

  #103 opened a year ago by x1han
  9

• problem installing v1.2

  #102 opened a year ago by zktuong
  7

• Naming conventions in the raw reads file.

  #101 opened a year ago by cakeinspace
  5

• palantir.preprocess.log_transform(ad) error

  #99 opened a year ago by sailseem
  3

• Use a Cell Type cluster and not a name of cell to run Palantir

  #83 opened a year ago by emanuelavilla
  1

• Error in palantir.plot.plot_diffusion_components(umap, dm_res)

  #95 opened a year ago by st4302
  1

• NotImplementedError: adding a nonzero scalar to a sparse matrix is not supported

  #91 opened a year ago by wbrett87
  3

• Issue with gene expression trends

  #82 opened a year ago by Kristina1234444
  7

• Error in pca_projections

  #94 opened a year ago by sneupane04
  1

• Do we need to do MAGIC imputation?

  #96 opened a year ago by st4302
  1

• Terminal states is hard to understand

  #97 opened a year ago by liaoshengguang
  4

• obtaining unscaled pseudotime

  #85 opened a year ago by khanthanan
  4

• start cell and pseudotime

  #92 opened a year ago by wangjiawen2013
  1

• input data and imputation

  #93 opened a year ago by wangjiawen2013
  1

• Branching probabilities do not reach 1

  #90 opened 2 years ago by ktpolanski
  6

• Unable to reproduce code from Palantir_sample_notebook.ipynb

  #87 opened 2 years ago by spriyansh
  7