Lisch

When using the aplot package (version 0.2.0), the following error message appears when using the function "insert_left"： ``` Error in if (zero_range(as.numeric(limits))) { : missing value where TRUE/FALSE needed In...

Problems installing RIMA environment

4

Hi， I tried to install RIMA environment. However, I found out that I could not install two python module (mhcnuggets==2.3.3, mhctools==1.8.1). Other necessary module and packages were installed successfully and...

Some suggestions about OV

11

Hi, Firstly, I'd like to commend the OV project for its contributions to scRNA analysis. I have a few suggestions that could potentially enhance its utility: 1. Flexibility in ov.pp.preprocess:...

Inquiry about Preprocessing with Specific Gene Exclusion Based on "Liver tumour immune microenvironment subtypes and neutrophil heterogeneity" Study

1

Hi, I recently read the article "Liver tumour immune microenvironment subtypes and neutrophil heterogeneity" and was intrigued by the methodological approach, particularly the part about removing certain genes listed in...

Issue with BPCells::write_matrix_dir: Column Name Error

1

Hello, I am encountering an issue with the `BPCells::write_matrix_dir` function and am seeking some assistance. **Background**: I have processed my dataset using Scanpy and am now looking to transition this...

Issue with set_zero_in_cmap_to_transparent Function Not Making Zero Values Transparent in Spatial Data Plotting

7

# **Issue Description** I am experiencing an issue with the `set_zero_in_cmap_to_transparent` function. According to the documentation, using this function should set the positions in the data with a value of...

Error when running netClustering with type = "structural": 'data' must be of a vector type, was 'NULL'

1

Hello, I encountered an error when trying to compare two datasets using CellChat. Specifically, I ran the following command: ``` cellchat

Extend functions (e.g., Cluster_Stats_All_Samples) to support data.frame and data.table inputs

3

Hi, First of all, thank you for developing `scCustomize` — it’s an excellent package and very useful in my daily workflow. I’ve noticed that several functions in the package (for...