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

#279 - 3D reconstruction with pairwise alignment

Issue - State: open - Opened by Zluei 18 days ago - 1 comment

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

Issue - State: open - Opened by uush99 about 1 month ago - 2 comments

#276 - Combined visualization of domains and segmented cells

Issue - State: open - Opened by lzy-9865 about 1 month ago - 1 comment

#274 - about cell segmentation

Issue - State: open - Opened by Mollyx06 about 1 month ago - 1 comment

#270 - bug of align_preprocess

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

#269 - Aligning nuclei staining map and gem coordinates

Issue - State: open - Opened by Claud1ia about 2 months ago - 1 comment

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

Pull Request - State: open - Opened by Sichao25 about 2 months ago

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

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

#266 - Debug PyPI publish workflow

Pull Request - State: closed - Opened by Sichao25 2 months ago

#265 - PrinCurve_method needs specific tensorflow

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

#264 - missing dict in morphofield_gp

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

#263 - TypeError when creating AnnData object from Pandas DataFrame

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

#262 - import lastest spateo error

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

#261 - Optimize function calling in `paste_pairwise_align`

Pull Request - State: open - Opened by Sichao25 3 months ago

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

Issue - State: open - Opened by uush99 3 months ago - 1 comment

#258 - Sample data missing

Issue - State: open - Opened by Sichao25 3 months ago

#256 - pip下载安装的时候显示错误

Issue - State: open - Opened by Yifan-debug 3 months ago - 6 comments

#255 - Restore contour.py

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

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

Pull Request - State: open - Opened by Sichao25 4 months ago - 1 comment

#253 - Upgrade matplotlib

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

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

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

#251 - Deprecate sparse matrix `.A` attributes

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

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

Pull Request - State: closed - Opened by Starlitnightly 4 months ago - 11 comments

#249 - Optimized SCC performance & fix some bugs

Pull Request - State: open - Opened by Purkinje-cell 4 months ago - 1 comment

#248 - Fixed some bugs in CCI code

Pull Request - State: closed - Opened by Purkinje-cell 4 months ago - 1 comment

#247 - not enough memory to run construct_surface

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

#246 - update matplotlib version

Pull Request - State: closed - Opened by chansigit 5 months ago

#245 - Fixed concatenate issues when using gaussian distribution

Pull Request - State: closed - Opened by Purkinje-cell 5 months ago

#244 - Clean up the requirement package

Issue - State: open - Opened by YifanLu2000 5 months ago - 2 comments

#242 - update matplotlib dependencies

Pull Request - State: closed - Opened by chansigit 5 months ago

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

Pull Request - State: closed - Opened by zEpoch 5 months ago - 2 comments

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

Issue - State: closed - Opened by Mollyx06 5 months ago - 2 comments

#238 - matplotlib dependency is really outdated

Issue - State: closed - Opened by chansigit 6 months ago - 1 comment
Labels: Stale

#237 - Remove mpi4py

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

#236 - 3D重构slice对齐步骤报错

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

#235 - cell segmentation cs.score_and_mask_pixels function modulenotfounderror

Issue - State: closed - Opened by vivian-huang 7 months ago - 2 comments
Labels: Stale

#232 - errors about ot.gromov.cg

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

#231 - question about how to plot cell segmentaion results

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

#229 - question abour cell segmeantation

Issue - State: closed - Opened by caiquanyou 8 months ago - 1 comment

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

Issue - State: closed - Opened by yang050036 9 months ago - 4 comments
Labels: Stale

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

Issue - State: closed - Opened by weiyouzi321 9 months ago - 2 comments

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

Issue - State: open - Opened by xhli2 9 months ago - 10 comments
Labels: Stale

#224 - Merge Daniel's developmental branch

Pull Request - State: closed - Opened by dzhu8 10 months ago

#223 - Merge Daniel's developmental branch

Pull Request - State: closed - Opened by dzhu8 10 months ago

#222 - Merge Daniel developmental branch

Pull Request - State: closed - Opened by dzhu8 10 months ago

#221 - Set `sphinxext-opengraph` to 0.8.2

Pull Request - State: closed - Opened by Sichao25 10 months ago

#220 - Merge dzhu developmental branch

Pull Request - State: closed - Opened by dzhu8 10 months ago

#219 - Merge dzhu developmental branch

Pull Request - State: closed - Opened by dzhu8 10 months ago

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

Issue - State: closed - Opened by uush99 10 months ago - 4 comments
Labels: Stale

#217 - Are some spateo functions unusable?

Issue - State: closed - Opened by uush99 11 months ago - 3 comments

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

Pull Request - State: closed - Opened by YifanLu2000 11 months ago - 3 comments

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

Issue - State: closed - Opened by Biogod2020 11 months ago - 1 comment

#214 - 请教Spateo绘制AP、DV轴和backbone的问题

Issue - State: closed - Opened by uush99 11 months ago - 5 comments

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

Issue - State: closed - Opened by uush99 11 months 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 about 1 year ago - 3 comments
Labels: Stale

#207 - illegal hardware instruction python

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

#206 - Add mpi4py dependency

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

#205 - Update paste.py

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

#204 - Merging my updates

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

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

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

#202 - st.cs.expand_labels: TerminatedWorkerError

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

#201 - http error when using st.sample_data.drosophila()

Issue - State: closed - Opened by MingLi-929 about 1 year ago - 2 comments

#200 - 如何在不能联网的集群使用需要预下载模型的函数进行细胞分割

Issue - State: closed - Opened by yty420 about 1 year ago - 3 comments
Labels: Stale

#199 - score_and_mask_pixels: ValueError: autodetected range of [nan, nan] is not finite

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

#198 - installation issue

Issue - State: closed - Opened by wqy399 over 1 year ago - 4 comments
Labels: Stale

#197 - 安装问题

Issue - State: closed - Opened by lvmt over 1 year ago - 6 comments

#196 - Debug external import issue

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

#195 - Issues in Clustering and digitization

Issue - State: closed - Opened by AkkSeannn over 1 year ago - 10 comments
Labels: Stale

#194 - installation issue

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

#193 - 使用深度学习方法StarDist进行分割时出现的错误

Issue - State: closed - Opened by YAOJ-bioin over 1 year ago - 2 comments
Labels: Stale

#192 - Illegal instruction (core dumped)

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

#191 - Non-rigid Morpho Align

Issue - State: closed - Opened by Harrison-Q-Ma over 1 year ago - 4 comments
Labels: Stale

#190 - Bump version: 1.0.2 → 1.1.0

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

#189 - Reformat

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

#188 - Remove non-conda-forge package from requirement

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

#187 - Copy logging-release code

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

#186 - Update dyn pp external import

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

#185 - AttributeError: 'Niche_Model' object has no attribute 'type_coupling'

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

#184 - Question for `generate_spatial_weights_fixed_radius` when doing CCI analysis

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

#183 - Image registration of ssNDA and RNA in Spateo

Issue - State: closed - Opened by Taoli0113 over 1 year ago - 1 comment
Labels: Stale

#182 - module 'dynamo.pp' has no attribute 'normalize_cell_expr_by_size_factors'

Issue - State: closed - Opened by xuansuyang over 1 year ago - 11 comments
Labels: Stale

#181 - update anndata dependency

Pull Request - State: closed - Opened by Sichao25 over 1 year ago - 2 comments

#180 - Make sure the L-R database are included in the package

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

#179 - Conda recipe

Pull Request - State: open - Opened by Ukyeon over 1 year ago

#178 - 3D reconstruction

Issue - State: closed - Opened by JingGuo1997 over 1 year ago - 2 comments