Ecosyste.ms: Issues

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GitHub / almaan/stereoscope issues and pull requests

#41 - Error when running stereoscope ...

Issue - State: open - Opened by ineskrd 8 months ago

#39 - stereoscope test occurred error

Issue - State: open - Opened by DINGQIA about 1 year ago

#38 - How to choose a right batch size?

Issue - State: open - Opened by yunbokai over 1 year ago

#37 - How can I get the top genes for a celltype?

Issue - State: open - Opened by jemorlanes over 1 year ago - 2 comments

#34 - stereoscope test Error

Issue - State: open - Opened by yunbokai over 1 year ago - 2 comments

#33 - How to map all the cell type in a single visium slide

Issue - State: open - Opened by AkilaRanjith almost 2 years ago

#32 - Bump numpy from 1.21.0 to 1.22.0

Pull Request - State: open - Opened by dependabot[bot] over 2 years ago
Labels: dependencies

#31 - running the stereoscope command for method comparison is throwing some error

Issue - State: open - Opened by Shrabanti87 over 2 years ago - 10 comments

#30 - test error

Issue - State: open - Opened by linhuawang almost 3 years ago - 1 comment

#29 - Recycling sc models

Issue - State: open - Opened by johnyaku almost 3 years ago

#28 - Number of cores/threads

Issue - State: open - Opened by kdragicevic about 3 years ago - 1 comment

#27 - Error : TypeError: '<' not supported between instances of 'int' and 'str'

Issue - State: closed - Opened by bomacchih about 3 years ago - 15 comments
Labels: enhancement

#26 - counts of gene g at spot s from cell c?

Issue - State: open - Opened by gorkemkose over 3 years ago - 2 comments

#25 - Top n criteria and some other things

Pull Request - State: open - Opened by jfnavarro over 3 years ago - 1 comment

#24 - Strategy for selections of genes

Issue - State: open - Opened by jfnavarro over 3 years ago - 4 comments

#23 - Exclude spots not covered by the tissue

Issue - State: open - Opened by jiazhao97 almost 4 years ago

#22 - Running Stereoscope- SC data format error?

Issue - State: closed - Opened by Roopali24 almost 4 years ago - 1 comment

#21 - Error while running ./setup.py install --user

Issue - State: closed - Opened by Roopali24 almost 4 years ago - 5 comments

#20 - installing and test question

Issue - State: closed - Opened by caiquanyou almost 4 years ago - 7 comments
Labels: bug

#19 - fix h5ad

Pull Request - State: closed - Opened by giovp almost 4 years ago

#18 - Interaction with AnnData

Issue - State: open - Opened by romain-lopez about 4 years ago - 6 comments

#17 - gpu utilization

Issue - State: open - Opened by giovp about 4 years ago

#16 - --silent_mode still prints output

Issue - State: open - Opened by giovp about 4 years ago - 2 comments

#15 - Metric for co-ocurrence of cells within ST Visium spots

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

#13 - A threshold to remove the cell type with low proportion

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

#12 - how does stereoscope eventually deceide the input genes

Issue - State: closed - Opened by BioAmelie about 4 years ago - 7 comments

#11 - the meaning of output files

Issue - State: closed - Opened by BioAmelie about 4 years ago - 5 comments

#10 - make package pip installable

Issue - State: closed - Opened by giovp about 4 years ago - 3 comments

#9 - mouse-st-data.zip data need password

Issue - State: closed - Opened by BioAmelie over 4 years ago - 15 comments

#8 - H5AD Sparse Matrix Support

Issue - State: closed - Opened by nik1sto over 4 years ago - 5 comments

#7 - Syntax Error stsc/datasets.py

Issue - State: closed - Opened by nik1sto over 4 years ago - 2 comments

#6 - Bugfix in Utils

Issue - State: closed - Opened by nik1sto over 4 years ago - 2 comments

#5 - Setup numba didn't work

Issue - State: closed - Opened by nik1sto over 4 years ago - 2 comments

#4 - anndata support?

Issue - State: closed - Opened by giovp over 4 years ago - 2 comments
Labels: enhancement

#3 - Plotting `stereoscope` results

Issue - State: closed - Opened by cartal over 4 years ago - 2 comments
Labels: enhancement

#2 - ValueError: could not convert string to float: 'AAACAAGTATCTCCCA-1'

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

#1 - Time and usage for Visium data

Issue - State: closed - Opened by giovp over 4 years ago - 1 comment