TrigosTeam/SPIAT issues and pull requests

#42 - Multiple images

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

#41 - Predict_phenotypes does not plot density plots

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

#40 - Updated vignette link in README

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

#39 - NA result of crossing_of_crossK() function

Issue - State: closed - Opened by navern0net 6 months ago - 3 comments

#38 - Fixed cluster assignment issue in neighborhood detection

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

#37 - How can we get the neighborhood classification for each cells?

Issue - State: closed - Opened by Feng-Zhang 7 months ago - 1 comment

#36 - Update main branch with development version 1.7.1

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

#35 - Adding feature_colname attribute

Pull Request - State: closed - Opened by Art-Ink 8 months ago - 1 comment

#34 - clustering problem

Issue - State: closed - Opened by JessicaP94 10 months ago - 1 comment

#33 - Define cell types based on the absence of markers

Issue - State: open - Opened by fuerzhou 11 months ago
Labels: enhancement

#32 - Automatically batch export of thresholds and images from predict_phenotypes() Function

Issue - State: closed - Opened by chujun225 11 months ago

#31 - Question in Quantifying cell colocalisation

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

#30 - reading in data to SPIAT

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

#29 - Incorrect intensity threshold due to zero-inflated distribution

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

#28 - Big data set causing R to crash when using "identify_neighbourhoods" with "hierarchical" method

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

#27 - Devel 1.5.1

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

#26 - Not able to generate Seurat Object using 10xgenomics Data

Issue - State: closed - Opened by apsuresh over 1 year ago

#25 - Devel

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

#24 - Convert spatialExperiment object into Seurat object

Issue - State: closed - Opened by JessicaP94 over 1 year ago - 2 comments

#23 - Importing annotation and specifying exclusion (negative) markers

Issue - State: closed - Opened by prestigious-bat3868 over 1 year ago - 2 comments

#22 - Merge recent updates from devel

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

#21 - Help with marker_prediction_plot

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

#20 - calculate_pairwise_distances_between_celltypes not working

Issue - State: closed - Opened by JessicaP94 over 1 year ago - 4 comments

#19 - Devel v1.3.1

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

#18 - Move from spatstat.core to spatstat.model.

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

#17 - Suggested tweaks from Bioconductor review

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

#16 - AUC_of_cross_function.R AUC can > 1

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

#15 - Encountering errors for analysis related to marker intensity.

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 2 comments

#14 - dimensionality_reduction_plot function not working

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 6 comments

#13 - Encountering error for plot_cell_categories function multiple times

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 2 comments

#12 - image_splitter() function is not working

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 1 comment

#11 - calculate_spatial_autocorrelaton is not working

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 4 comments

#10 - After deletion of mis-classified cells from the image, TSNE plot is not generating

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 3 comments

#9 - Scatter Plot not generating

Issue - State: closed - Opened by yuvibim08 over 2 years ago - 3 comments

#8 - update dev branch with main

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

#7 - Dev

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

#6 - update files

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

#5 - make fig size small

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

#4 - Update README.md

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

#3 - Update introduction.Rmd

Pull Request - State: closed - Opened by annatrigos almost 3 years ago - 1 comment

#2 - Maria few edits

Pull Request - State: closed - Opened by mblue9 almost 3 years ago

#1 - Maria few edits

Pull Request - State: closed - Opened by mblue9 almost 3 years ago

GitHub / TrigosTeam/SPIAT issues and pull requests