Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / aristoteleo/spateo-release issues and pull requests

#305 - cuda out of memory

Issue - State: open - Opened by yuling999666 15 days ago - 3 comments

#304 - pyvista>=0.39.1?

Issue - State: closed - Opened by Li-ZhiD 24 days ago - 1 comment

#303 - cell annotations in the embryo dataset

Issue - State: closed - Opened by LeonSong1995 24 days ago - 3 comments

#301 - 'NearestNeighbors' object has no attribute 'uns'

Issue - State: open - Opened by fengweimin-maker 26 days ago - 1 comment

#300 - Unable to generate 3d plots in a remote (headless) server

Issue - State: closed - Opened by Szym29 29 days ago - 3 comments

#299 - Number of threads used by spateo

Issue - State: closed - Opened by flcvlr about 1 month ago - 1 comment

#298 - question about creating a CosMx object

Issue - State: open - Opened by CenFWNW about 1 month ago - 1 comment

#295 - ValueError: Re-registering the builtin cmap 'Set1' is not allowed.

Issue - State: open - Opened by liangyuli12138 about 2 months ago - 1 comment

#293 - spateo.tl.scc

Issue - State: open - Opened by LILI-0000-0002-8173-7367 about 2 months ago - 5 comments

#292 - Where is the tutorial of 3D reconstruction with pairwise alignment?

Issue - State: open - Opened by waniwal about 2 months ago - 6 comments

#291 - Questions about numpy compatible versions

Issue - State: open - Opened by Aure712 2 months ago - 4 comments

#290 - How to export ssDNA photo after refinement alignment

Issue - State: open - Opened by Aure712 2 months ago

#289 - where can I find slideseq_helpers?

Issue - State: open - Opened by forrwill 2 months ago - 1 comment

#288 - Update README.md

Pull Request - State: closed - Opened by YanshiHu 2 months ago - 1 comment

#287 - Multi-slice alignment during 3D reconstruction, Z-axis

Issue - State: open - Opened by yxs-124 2 months ago - 1 comment

#286 - bug in tutorial in st.tdr.gp_interpolation

Issue - State: closed - Opened by ustc-fmh 2 months ago - 8 comments

#285 - Update README.md

Pull Request - State: closed - Opened by YanshiHu 2 months ago

#284 - ‘E7-9h_cellbin_h5ad.zip等文件的网址里的资源被取消

Issue - State: open - Opened by babySherlock 2 months ago - 3 comments

#282 - module 'spateo.align' has no attribute 'group_pca'

Issue - State: open - Opened by Li-ZhiD 2 months ago - 3 comments

#279 - 3D reconstruction with pairwise alignment

Issue - State: open - Opened by Zluei 3 months ago - 1 comment

#278 - How to perform spateo interactive visualization on my Linux Server?

Issue - State: open - Opened by uush99 3 months ago - 2 comments

#276 - Combined visualization of domains and segmented cells

Issue - State: open - Opened by lzy-9865 3 months ago - 1 comment

#274 - about cell segmentation

Issue - State: closed - Opened by Mollyx06 3 months ago - 1 comment

#270 - bug of align_preprocess

Issue - State: open - Opened by caiquanyou 4 months ago - 2 comments

#269 - Aligning nuclei staining map and gem coordinates

Issue - State: open - Opened by Claud1ia 4 months ago - 1 comment

#268 - Debug duplicate signatures in `numba.vectorize()`

Pull Request - State: open - Opened by Sichao25 4 months ago

#267 - How to make two mesh VTK data conbine to one VTK data?

Issue - State: open - Opened by uush99 4 months ago - 2 comments

#266 - Debug PyPI publish workflow

Pull Request - State: closed - Opened by Sichao25 4 months ago

#265 - PrinCurve_method needs specific tensorflow

Issue - State: open - Opened by Secretloong 4 months ago - 1 comment

#264 - missing dict in morphofield_gp

Issue - State: open - Opened by Secretloong 4 months ago - 1 comment

#263 - TypeError when creating AnnData object from Pandas DataFrame

Issue - State: open - Opened by WeipengMO 4 months ago - 2 comments

#262 - import lastest spateo error

Issue - State: open - Opened by ChangliangWang 5 months ago - 3 comments
Labels: Stale

#261 - Optimize function calling in `paste_pairwise_align`

Pull Request - State: open - Opened by Sichao25 5 months ago

#260 - Can I use non cellsplited data to use spateo to make 3D?

Issue - State: open - Opened by uush99 5 months ago - 2 comments
Labels: Stale

#258 - Sample data missing

Issue - State: open - Opened by Sichao25 5 months ago - 1 comment
Labels: Stale

#257 - How to transfer xenium dataset to Anndata which could be used for 3D visualization

Issue - State: open - Opened by Yifan-debug 5 months ago - 7 comments
Labels: Stale

#256 - pip下载安装的时候显示错误

Issue - State: open - Opened by Yifan-debug 5 months ago - 7 comments
Labels: Stale

#255 - Restore contour.py

Pull Request - State: closed - Opened by Sichao25 6 months ago

#254 - Remove `trame` and `trame-server` from requirements

Pull Request - State: open - Opened by Sichao25 6 months ago - 1 comment

#253 - Upgrade matplotlib

Pull Request - State: closed - Opened by Sichao25 6 months ago

#252 - AttributeError: module 'spateo.pl' has no attribute 'spatial_domains'

Issue - State: closed - Opened by Donbbit 6 months ago - 2 comments
Labels: Stale

#251 - Deprecate sparse matrix `.A` attributes

Pull Request - State: closed - Opened by Sichao25 6 months ago

#250 - Optimized `SCC` Implementation and Removed `TensorFlow` Dependencies

Pull Request - State: closed - Opened by Starlitnightly 6 months ago - 11 comments

#249 - Optimized SCC performance & fix some bugs

Pull Request - State: open - Opened by Purkinje-cell 6 months ago - 1 comment

#248 - Fixed some bugs in CCI code

Pull Request - State: closed - Opened by Purkinje-cell 6 months ago - 1 comment

#247 - not enough memory to run construct_surface

Issue - State: closed - Opened by caiquanyou 6 months ago - 3 comments
Labels: Stale

#246 - update matplotlib version

Pull Request - State: closed - Opened by chansigit 7 months ago

#245 - Fixed concatenate issues when using gaussian distribution

Pull Request - State: closed - Opened by Purkinje-cell 7 months ago

#244 - Clean up the requirement package

Issue - State: open - Opened by YifanLu2000 7 months ago - 2 comments

#242 - update matplotlib dependencies

Pull Request - State: closed - Opened by chansigit 7 months ago

#241 - 'TorchBackend' object has no attribute 'sort2'

Pull Request - State: closed - Opened by zEpoch 7 months ago - 2 comments

#240 - KeyError: 'Index (0) not understood. ...'

Issue - State: closed - Opened by Mollyx06 7 months ago - 2 comments

#238 - matplotlib dependency is really outdated

Issue - State: closed - Opened by chansigit 8 months ago - 1 comment
Labels: Stale

#237 - Remove mpi4py

Pull Request - State: closed - Opened by Sichao25 8 months ago

#236 - 3D重构slice对齐步骤报错

Issue - State: closed - Opened by seqyuan 8 months ago - 2 comments
Labels: Stale

#235 - cell segmentation cs.score_and_mask_pixels function modulenotfounderror

Issue - State: closed - Opened by vivian-huang 10 months ago - 2 comments
Labels: Stale

#232 - errors about ot.gromov.cg

Issue - State: closed - Opened by chansigit 10 months ago - 1 comment
Labels: Stale

#231 - question about how to plot cell segmentaion results

Issue - State: closed - Opened by caiquanyou 10 months ago - 1 comment
Labels: Stale

#230 - After installing the latest Spateo, following the tutorial cannot reproduce the results

Issue - State: closed - Opened by elegantmedstu 11 months ago - 2 comments
Labels: Stale

#229 - question abour cell segmeantation

Issue - State: closed - Opened by caiquanyou 11 months ago - 1 comment

#228 - The boundary_line is empty when I used with st.dd.identify_boundary

Issue - State: closed - Opened by yang050036 11 months ago - 4 comments
Labels: Stale

#226 - AttributeError: module 'spateo.tl' has no attribute 'models_align_ref'

Issue - State: closed - Opened by weiyouzi321 11 months ago - 2 comments

#225 - AttributeError: module 'spateo.tl' has no attribute 'weighted_spatial_graph'

Issue - State: closed - Opened by xhli2 11 months ago - 10 comments
Labels: Stale

#224 - Merge Daniel's developmental branch

Pull Request - State: closed - Opened by dzhu8 12 months ago

#223 - Merge Daniel's developmental branch

Pull Request - State: closed - Opened by dzhu8 12 months ago

#222 - Merge Daniel developmental branch

Pull Request - State: closed - Opened by dzhu8 12 months ago

#221 - Set `sphinxext-opengraph` to 0.8.2

Pull Request - State: closed - Opened by Sichao25 about 1 year ago

#220 - Merge dzhu developmental branch

Pull Request - State: closed - Opened by dzhu8 about 1 year ago

#219 - Merge dzhu developmental branch

Pull Request - State: closed - Opened by dzhu8 about 1 year ago

#218 - Hi ,could I ask a question about the trajectory model?

Issue - State: closed - Opened by uush99 about 1 year ago - 4 comments
Labels: Stale

#217 - Are some spateo functions unusable?

Issue - State: closed - Opened by uush99 about 1 year ago - 3 comments

#216 - Improve the performance of st.tdr.construct_surface

Pull Request - State: closed - Opened by YifanLu2000 about 1 year ago - 3 comments

#215 - ImportError: cannot import name 'UniformGrid' from 'pyvista'

Issue - State: closed - Opened by Biogod2020 about 1 year ago - 1 comment

#214 - 请教Spateo绘制AP、DV轴和backbone的问题

Issue - State: closed - Opened by uush99 about 1 year ago - 5 comments

#213 - A question about Axis & Backbone of 3D construction?

Issue - State: closed - Opened by uush99 about 1 year ago - 1 comment

#212 - An issues when Digitization

Issue - State: closed - Opened by yang050036 about 1 year ago - 1 comment
Labels: Stale

#211 - "ValueError: need at least one array to concatenate" in st.tdr.morphopath function

Issue - State: closed - Opened by pangkun97 about 1 year ago - 1 comment
Labels: Stale

#210 - Need to go through the code to ensure the documentation of the package is well done

Issue - State: closed - Opened by Xiaojieqiu about 1 year ago - 1 comment
Labels: Stale

#209 - Ask for help

Issue - State: closed - Opened by uush99 about 1 year ago - 5 comments

#208 - TypeError: concat() takes 1 positional argument but 2 were given

Issue - State: closed - Opened by WeipengMO over 1 year ago - 3 comments
Labels: Stale

#207 - illegal hardware instruction python

Issue - State: closed - Opened by sinanugur over 1 year ago - 4 comments
Labels: Stale

#206 - Add mpi4py dependency

Pull Request - State: closed - Opened by Sichao25 over 1 year ago - 1 comment

#205 - Update paste.py

Pull Request - State: closed - Opened by zEpoch over 1 year ago - 1 comment

#204 - Merging my updates

Pull Request - State: closed - Opened by dzhu8 over 1 year ago - 2 comments

#203 - st.io.read_bgi_agg: Padding stain image

Issue - State: closed - Opened by sunshx-bioinfo over 1 year ago - 2 comments
Labels: Stale