BGIResearch/stereopy issues and pull requests

#125 - Algorithm

Pull Request - State: open - Opened by YaoLi3 over 1 year ago

#124 - How to set plotting functions basic formatting arguments?

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

#123 - Install hangs failing to collect package metadata

Issue - State: open - Opened by vdet over 1 year ago - 3 comments

#122 - kernel keep dying while reading stereoseq gef file

Issue - State: open - Opened by raman91 over 1 year ago - 3 comments

#121 - Conversion of GEM and GEF file formats

Issue - State: closed - Opened by Taoli0113 over 1 year ago - 3 comments
Labels: help wanted

#120 - ins.export_high_res_area stuck issue

Issue - State: closed - Opened by mcraftt over 1 year ago - 11 comments

#119 - Reading in custom .h5ad file, issues with adata.obsm['spatial'] - `ValueError: Unfamiliar encoding-type: dict.`

Issue - State: closed - Opened by mckellardw over 1 year ago - 5 comments

#118 - plt.marker_genes_scatter cannot plot using scaled data

Issue - State: closed - Opened by ZeroLi-Bio over 1 year ago - 3 comments

#117 - How to draw nGene on umap

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

#116 - add vt3d_browser

Pull Request - State: open - Opened by cchd0001 almost 2 years ago

#115 - Version release date error

Issue - State: closed - Opened by DMaspero almost 2 years ago - 1 comment

#114 - How to draw the ssDNA image?

Issue - State: closed - Opened by vagabond12 almost 2 years ago - 2 comments

#113 - Lyon len patch 1

Pull Request - State: closed - Opened by LyonLen almost 2 years ago

#112 - Homepage modification

Pull Request - State: open - Opened by UglyRay7 almost 2 years ago

#111 - Homepage modification

Pull Request - State: closed - Opened by UglyRay7 almost 2 years ago

#110 - First commit

Pull Request - State: closed - Opened by Tianyi-Summer almost 2 years ago - 2 comments

#109 - Add time_series_analysis.py contains fuzzyC, TVG and spatial trajectory visualization for time series multi slice

Pull Request - State: closed - Opened by caolei2-BGI almost 2 years ago - 1 comment

#108 - 3D CCC Algorithm

Pull Request - State: closed - Opened by Melonnaire almost 2 years ago - 1 comment

#107 - 交互式不起作用

Issue - State: closed - Opened by lvmt almost 2 years ago - 4 comments

#106 - CellCut.cell_cut not working

Issue - State: closed - Opened by crelicthecleric almost 2 years ago - 4 comments
Labels: help wanted

#105 - marker gene plot

Issue - State: closed - Opened by xiangyugits almost 2 years ago - 2 comments

#104 - data_helper.merge merge slices

Issue - State: closed - Opened by JingGuo1997 almost 2 years ago - 2 comments

#103 - Not able to use stereopy after installation

Issue - State: closed - Opened by pratapstat almost 2 years ago - 8 comments

#102 - error: cgef to h5ad

Issue - State: closed - Opened by zt6597 almost 2 years ago - 2 comments

#101 - Cell Segmentation问题，tissue cut有遗漏以及有多余的细胞被分割出来

Issue - State: closed - Opened by easyc1 almost 2 years ago - 2 comments

#100 - ZeroDivisionError data.tl.find_marker_genes

Issue - State: closed - Opened by ChangqingW almost 2 years ago - 2 comments

#99 - GRN module, Algorithm

Pull Request - State: closed - Opened by YaoLi3 almost 2 years ago - 1 comment

#98 - cell correct error

Issue - State: closed - Opened by zt6597 almost 2 years ago - 9 comments

#97 - Error in data.tl.leiden

Issue - State: closed - Opened by lh12565 almost 2 years ago - 3 comments
Labels: installation

#96 - About cell correction

Issue - State: closed - Opened by SuqinYang almost 2 years ago - 1 comment

#95 - Image feature Module V0.1

Pull Request - State: closed - Opened by caolei2-BGI about 2 years ago

#94 - Stereopy co-occurrence module V0.1

Pull Request - State: closed - Opened by caolei2-BGI about 2 years ago

#93 - Algorithm

Pull Request - State: closed - Opened by caolei2-BGI about 2 years ago

#92 - Stereopy cell-cell communication module V0.1

Pull Request - State: closed - Opened by Melonnaire about 2 years ago - 1 comment

#91 - ImportError: cannot import name 'config' from partially initialized module 'panel.config' (most likely due to a circular import)

Issue - State: closed - Opened by Edison19991109 about 2 years ago - 1 comment

#90 - Index error on data.plt.umap(gene_names=['Atpif1', 'Tmsb4x'], res_key='umap')

Issue - State: closed - Opened by Edison19991109 about 2 years ago - 2 comments

#89 - Testing

Pull Request - State: closed - Opened by LyonLinBGI about 2 years ago

#88 - Missing data

Issue - State: closed - Opened by vladimirkovacevic about 2 years ago - 5 comments

#87 - Can't install stereopy developer's version

Issue - State: closed - Opened by vladimirkovacevic about 2 years ago - 17 comments

#86 - How to add scale bar to cluster_scatter plot?

Issue - State: closed - Opened by LixinyuLiu about 2 years ago - 2 comments

#85 - Error running `annh5ad2rds.R`

Issue - State: closed - Opened by shaniAmare about 2 years ago - 7 comments
Labels: help wanted

#84 - File Read Error with `st.io.read_stereo_h5ad`

Issue - State: closed - Opened by shaniAmare about 2 years ago - 1 comment

#83 - Fatal error at src/core/vector.c:483 : Assertion failed: v->stor_begin != NULL

Issue - State: closed - Opened by lljzz about 2 years ago - 6 comments

#82 - What does cellId stand for in the .gem file?

Issue - State: closed - Opened by PSSUN about 2 years ago - 4 comments

#81 - Loading Stereo on Jupyter Notebook Error

Issue - State: closed - Opened by shaniAmare about 2 years ago - 2 comments

#80 - How to implement interactive scatter with jupyter.

Issue - State: closed - Opened by ziongfen over 2 years ago - 4 comments

#79 - How to use stereopy for registration of histological images and gene expression images

Issue - State: closed - Opened by wenjiecai over 2 years ago - 7 comments

#78 - How to use my own dataset to train the neural network?

Issue - State: closed - Opened by HectorTo over 2 years ago - 2 comments

#77 - Cell segmentation

Issue - State: closed - Opened by JenC9292 over 2 years ago - 3 comments

#76 - Installation

Issue - State: closed - Opened by JenC9292 over 2 years ago - 1 comment

#75 - what is cell_names after read_gef

Issue - State: closed - Opened by xiangpin over 2 years ago - 2 comments

#74 - Panjie payne

Pull Request - State: closed - Opened by panjie-payne over 2 years ago

#73 - Dev

Pull Request - State: closed - Opened by 99657451 over 2 years ago - 1 comment

#72 - can not read tssue.gef

Issue - State: closed - Opened by JingGuo1997 over 2 years ago - 4 comments

#71 - Dev

Pull Request - State: closed - Opened by wuyiran55 over 2 years ago

#70 - Wuyiran

Pull Request - State: closed - Opened by wuyiran55 over 2 years ago

#69 - append read gef infomation function

Pull Request - State: closed - Opened by wuyiran55 over 2 years ago

#68 - Dev

Pull Request - State: closed - Opened by wuyiran55 over 2 years ago

#67 - change reader

Pull Request - State: closed - Opened by wuyiran55 over 2 years ago

#66 - Wuyiran

Pull Request - State: closed - Opened by wuyiran55 over 2 years ago

#65 - Installation Issues: gefpy and requirements.txt

Issue - State: closed - Opened by Arinze-BioX almost 3 years ago - 8 comments

#64 - Wuyiran

Pull Request - State: closed - Opened by wuyiran55 almost 3 years ago

#63 - Jinja2 version changed

Issue - State: closed - Opened by magcurly almost 3 years ago - 1 comment

#62 - Which python should be used for stereopy?

Issue - State: closed - Opened by XiaoyuZhan520 almost 3 years ago

#61 - Encontered error during 'import stereo as st'

Issue - State: closed - Opened by CJ-Liu almost 3 years ago

#60 - merge extension io func

Pull Request - State: closed - Opened by wuyiran55 almost 3 years ago

#59 - Error: No matching distribution found for gefpy>=0.1.1

Issue - State: closed - Opened by zhangnan0107 almost 3 years ago - 2 comments

#58 - Error with "import stereo"

Issue - State: closed - Opened by hanluhhh almost 3 years ago - 1 comment

#57 - add offset_x,offset_y to data attr and get them from gem/gef.

Pull Request - State: closed - Opened by wuyiran55 almost 3 years ago

#56 - Wuyiran

Pull Request - State: closed - Opened by wuyiran55 almost 3 years ago

#55 - 这个stereopy的数据好像不能下载，请问有办法吗？

Issue - State: closed - Opened by songboyuan1999 almost 3 years ago

#54 - Extension of io

Issue - State: closed - Opened by nilsmechtel almost 3 years ago - 1 comment

#53 - FileNotFoundError: [Errno 2] No such file or directory: 'requirements.txt'

Issue - State: closed - Opened by DMaspero almost 3 years ago - 2 comments