BiomedicalMachineLearning stLearn issues

BiomedicalMachineLearning / stLearn

A novel machine learning pipeline to analyse spatial transcriptomics data

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How to distinguish between sender spots and receiver spots? stlearn distance =200

#315 smk5g5 opened 3 days ago
0
Import H&E Image for Xenium

#314 ChenlingTangMDA opened 4 weeks ago
0
ValueError in stlearn.Read10X step

#313 TLC199676 opened 1 month ago
0
Cell to cell interaction: required data

#312 JestlinNg opened 1 month ago
0
Import issue

#311 elmir-ma opened 2 months ago
0
st.spatial.SME.SME_normalize: ValueError: Input X contains NaN.

#310 liangyuli12138 opened 2 months ago
0
CCI Maps might have reversed axis labels!

#309 je71xusa opened 3 months ago
1
Having trouble understanding the cell cell interaction table

#308 QiuYue117 closed 2 months ago
1
Error when running st.pl.cluster_plot

#307 kevin198930 opened 4 months ago
0
Running time of PTST analysis for Xenium data

#306 Ferris01 opened 4 months ago
1
"InvalidIndexError: Reindexing only valid with uniquely valued Index objects" when running st.tl.cci.run with custom LR set

#305 je71xusa opened 4 months ago
0
Gridding visualization with h&e image out of frame

#304 Rabitta99 opened 4 months ago
0
Image path when creating st object from other packages

#303 je71xusa opened 4 months ago
0
[Help please] Integrate multiple spatial transcriptomics datasets is not working!

#302 MatteoRiva95 opened 4 months ago
1
visium HD application

#301 revolvefire opened 4 months ago
1
numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopython frontend)

#300 tangsanpang2 opened 5 months ago
0
Clarification on Directionality in stLearn CCI Plots

#299 gity123987 opened 5 months ago
2
Handling Large Datasets in stLearn and the Impact on Computational Performance

#298 gity123987 opened 5 months ago
0
label_transfer_bc.csv

#297 oabuhuss opened 5 months ago
0
using stlearn for the first time.

#296 oabuhuss opened 5 months ago
1
Run stSME clustering without HE

#295 rocketeer1998 closed 5 months ago
3
A problem of quantifying the interaction between two specific cell types and doing spatial mapping

#294 XianLZ2301 opened 5 months ago
2
Installation issue with version conflicts

#293 Huyuling1 opened 5 months ago
5
update dependency

#292 xiao233333 closed 6 months ago
0
Installation issues on linux machine

#291 chiwwong opened 7 months ago
5
module 'numpy' has no attribute 'int'.

#290 Rafael-Silva-Oliveira closed 3 months ago
1
fix: fix several bugs of CCI and zoom

#289 duypham2108 closed 8 months ago
0
How does stlearn calculates the number of L-R pairs of celltype

#288 caiquanyou opened 8 months ago
1
【bug】 code error

#287 lvmt closed 8 months ago
1
Question about st.spatial.trajectory.compare_transitions

#286 zyy23 opened 8 months ago
1
Is it possible to run CCI in muti-sample?

#285 yunbokai closed 8 months ago
1
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 marnixwkoops closed 8 months ago
1
min_spots vs. the number of total spots in many different lib-size 10x Visium samples

#283 cjhong opened 9 months ago
1
Trajectory Zoom

#282 meaksu closed 8 months ago
2
st.pl.lr_chord_plot: TypeError: __init__() takes 4 positional arguments but 7 were given

#281 Ajaingithub closed 8 months ago
4
Single cell transcriptomic data for cell-cell communication

#280 liangbolyu closed 10 months ago
3
Could not control the root in the trajectory

#279 cynthier closed 8 months ago
3
Installation issue on Mac M3

#278 earn97 opened 10 months ago
3
Issue loading stlearn

#277 KarlKaise closed 8 months ago
1
stlearn attributes not found

#276 mvereten closed 8 months ago
1
error when using st.spatial.trajectory.pseudotimespace_local

#275 cynthier closed 10 months ago
2
Question abount integrating multiple spatial data with only spatial coordinates

#274 cynthier closed 10 months ago
2
fix: fix current issues

#273 duypham2108 closed 11 months ago
0
question for st.pl.cluster_plot fuction

#272 sycdegh closed 8 months ago
2
Question on create_stlearn function

#271 cxlpanpan closed 8 months ago
2
stlearn CCI is not working for multiple slides?

#270 howtofindme closed 8 months ago
2
Interactive stLearn: BokehJS 3.1.1 successfully loaded but no picture seen

#269 howtofindme closed 8 months ago
5
Pseudo-time-space analysis problem

#268 PIGAsHIT closed 11 months ago
8
st.ReadXenium issue

#267 yandouwahhh closed 8 months ago
2
How to get clear cell-pairs and ligand-receptor？

#266 Knight1995 closed 8 months ago
3