rajewsky-lab novosparc issues

rajewsky-lab / novosparc

BSD 3-Clause "New" or "Revised" License

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issues

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`plot_transport_entropy_dist` without atlas

#65 rvinas opened 1 year ago
0
feature gaussian cleanup

#64 vicfabienne opened 1 year ago
1
Reference atlas creation

#63 liliay opened 2 years ago
1
How to create the tissue.png file

#62 liliay opened 2 years ago
1
No attribute "io" - Input data import

#61 Diennguyen8290 closed 2 years ago
0
error when running tissue.setup_reconstruction

#60 shermas closed 2 years ago
8
Values for ref atlas

#59 shermas closed 2 years ago
1
how can I save a tissue object

#58 shermas closed 2 years ago
1
getting original cell identities with target space locations

#57 shermas opened 2 years ago
1
visualizing gene expression in multiple slices or 3D

#56 shermas opened 2 years ago
5
importing tiff stack for target space

#55 shermas opened 2 years ago
0
novosparc exhausts memory when anndata.X in sparse matrix format (CSC or CSR)

#54 sztankatt opened 2 years ago
0
Question: Use of novosparc on tumor samples

#53 ccruizm closed 2 years ago
2
novosparc fails (exit 137, process killed)

#52 dawe closed 2 years ago
5
add missing import

#51 moshegreen closed 2 weeks ago
0
division by zero error 'sinkhorn' optimization

#50 zoepiran opened 3 years ago
0
minor bug fix

#49 nukappa opened 3 years ago
1
Question about implementation and input data

#48 s849 opened 3 years ago
0
Display of ubiquitous genes

#47 MalteMederacke closed 3 years ago
1
Reconstruction with Marker Warning

#46 Hofphi closed 3 years ago
2
Update dependencies

#45 MalteMederacke closed 3 years ago
1
output problem

#44 caiquanyou closed 2 years ago
3
Atlas Matrix Bug

#43 mjang2000 closed 3 years ago
8
Possibility to extract mapping information of cell to location in geometry?

#42 Hsu-Che-Wei closed 3 years ago
2
The global transformation use in de novo reconstruction of Drosophila sc RNA-seq data

#41 hebeishangjiang closed 2 years ago
0
Updates with anndata, geometries, project structure

#40 enessenel closed 3 years ago
0
Plot positional confidences

#39 MalteMederacke closed 3 years ago
3
How to generate the space information for the reference marker genes

#38 MinjieHu closed 3 years ago
8
Downsampling of locations

#37 MalteMederacke closed 4 years ago
2
/novosparc/plotting/_plotting.py

#36 WhatAboutMyStar closed 4 years ago
2
Create new spatial markes from ISH images

#35 MalteMederacke closed 4 years ago
2
Repeatability

#34 Counts-Xin closed 4 years ago
5
Implemented moran's i and removed pysal from dependencies

#33 enessenel closed 4 years ago
0
import novosparc error

#32 zhangbaso closed 4 years ago
0
How to plot two or more genes in the same time?

#31 YiweiNiu closed 4 years ago
2
Can we get the relative distance of all cells?

#30 YiweiNiu closed 3 years ago
3
Full environment and version

#29 HichamAffia closed 4 years ago
3
ModuleNotFoundError: No module named 'pysal.explore.esda'

#28 I-Hao closed 4 years ago
2
Unable to run sample files

#27 YvonneChenCS closed 4 years ago
2
About mouse cerebellum slices data

#26 tauhidstanford closed 4 years ago
0
Installation issues

#25 ccruizm closed 4 years ago
5
Moran's I implementation for spatially informative genes

#24 enessenel closed 4 years ago
0
bdtnp.txt file missing

#23 HichamAffia closed 4 years ago
1
The object hold Moran’s score

#22 I-Hao closed 4 years ago
2
Some fixes to reconstruction examples, reconstruction notebook figures still wrong

#21 patrickaoude closed 4 years ago
0
nc.rc.setup_for_OT_reconstruction

#20 Counts-Xin closed 4 years ago
1
geometry.txt

#19 grst closed 4 years ago
2
bdtnp.txt

#18 Counts-Xin closed 4 years ago
2
added missing data for Drosophila scRNAseq

#17 nukappa closed 4 years ago
0
Files not found

#16 tauhidstanford closed 4 years ago
1