BiomedicalMachineLearning/stLearn

Issues

• Gridding visualization with h&e image out of frame

  #304 opened 4 days ago by Rabitta99
  0

• Image path when creating st object from other packages

  #303 opened 5 days ago by je71xusa
  0

• [Help please] Integrate multiple spatial transcriptomics datasets is not working!

  #302 opened 6 days ago by MatteoRiva95
  1

• visium HD application

  #301 opened 7 days ago by revolvefire
  1

• numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopython frontend)

  #300 opened 20 days ago by tangsanpang2
  0

• Handling Large Datasets in stLearn and the Impact on Computational Performance

  #298 opened 20 days ago by gity123987
  0

• Clarification on Directionality in stLearn CCI Plots

  #299 opened 20 days ago by gity123987
  0

• label_transfer_bc.csv

  #297 opened a month ago by oabuhuss
  0

• Run stSME clustering without HE

  #295 opened a month ago by rocketeer1998
  3

• using stlearn for the first time.

  #296 opened a month ago by oabuhuss
  1

• A problem of quantifying the interaction between two specific cell types and doing spatial mapping

  #294 opened a month ago by XianLZ2301
  2

• Installation issue with version conflicts

  #293 opened a month ago by Huyuling1
  5

• Installation issues on linux machine

  #291 opened 3 months ago by chiwwong
  5

• Installation issue on Mac M3

  #278 opened 6 months ago by earn97
  3

• module 'numpy' has no attribute 'int'.

  #290 opened 3 months ago by Rafael-Silva-Oliveira
  1

• st.pl.lr_chord_plot: TypeError: __init__() takes 4 positional arguments but 7 were given

  #281 opened 4 months ago by Ajaingithub
  4

• min_spots vs. the number of total spots in many different lib-size 10x Visium samples

  #283 opened 5 months ago by cjhong
  1

• Question about st.spatial.trajectory.compare_transitions

  #286 opened 4 months ago by zyy23
  1

• Trajectory Zoom

  #282 opened 4 months ago by meaksu
  2

• How does stlearn calculates the number of L-R pairs of celltype

  #288 opened 4 months ago by caiquanyou
  1

• 【bug】 code error

  #287 opened 4 months ago by lvmt
  1

• Is it possible to run CCI in muti-sample?

  #285 opened 4 months ago by yunbokai
  1

• question for st.pl.cluster_plot fuction

  #272 opened 4 months ago by sycdegh
  2

• stlearn attributes not found

  #276 opened 4 months ago by mvereten
  1

• Issue loading stlearn

  #277 opened 4 months ago by KarlKaise
  1

• How to get clear cell-pairs and ligand-receptor？

  #266 opened 4 months ago by Knight1995
  3

• st.ReadXenium issue

  #267 opened 4 months ago by yandouwahhh
  2

• Question on create_stlearn function

  #271 opened 4 months ago by cxlpanpan
  2

• How to get the clade no.s after generating trajectory plot

  #261 opened 4 months ago by rialc13
  3

• Question about CCI distance

  #263 opened 4 months ago by Knight1995
  0

• ValueError in step 2 of CCI analysis

  #264 opened 4 months ago by Rachel-qianqian
  2

• Dimension of 'distance' in LR permutation test

  #255 opened 4 months ago by joan-yanqiong
  1

• Interactive stLearn: BokehJS 3.1.1 successfully loaded but no picture seen

  #269 opened 4 months ago by howtofindme
  5

• stlearn CCI is not working for multiple slides?

  #270 opened 4 months ago by howtofindme
  2

• After Downloading environment and stlearn, when I start stlearn launch this error occurs: ImportError: Numba needs NumPy 1.22 or greater. Got NumPy 1.21.

  #284 opened 4 months ago by marnixwkoops
  1

• Could not control the root in the trajectory

  #279 opened 4 months ago by cynthier
  3

• Single cell transcriptomic data for cell-cell communication

  #280 opened 6 months ago by liangbolyu
  3

• Question abount integrating multiple spatial data with only spatial coordinates

  #274 opened 6 months ago by cynthier
  2

• error when using st.spatial.trajectory.pseudotimespace_local

  #275 opened 6 months ago by cynthier
  2

• save anndata object to h5ad file

  #262 opened 6 months ago by rialc13
  2

• Is pseudoroot & iroot the same?

  #260 opened 6 months ago by rialc13
  1

• Allow saving tiles as PNG images in `stlearn.pp.tiling`

  #257 opened 6 months ago by jbschiratti
  1

• Pseudo-time-space analysis problem

  #268 opened 7 months ago by PIGAsHIT
  8

• st.tl.cci.run "AttributeError: module 'numpy' has no attribute 'int'."

  #265 opened 8 months ago by skim245
  2

• How to add my own LR pair?

  #259 opened 8 months ago by Knight1995
  4

• Error in the step to stack horizontally 2 images from section 1 and section 2 in-house datasets

  #253 opened 8 months ago by tyaoi
  1

• st.add.image throwing error 'spatial/tissue_lowres_image.png' does not end on a valid extension'

  #258 opened 8 months ago by rialc13
  5

• st.spatial.trajectory.pseudotimespace_global()

  #254 opened 8 months ago by onionsci
  9

• st.spatial.trajectory.pseudotimespace_global()

  #256 opened 8 months ago by yandouwahhh
  2

• st.pl.cluster_plot

  #252 opened 9 months ago by ZJU-TingYun
  1