Baysor

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Input data format

8

@Hi,author, I'm trying to run Baysor with tiff and the MOLECULES_CSV contain information about x and y positions and gene assignment for each molecule, command just like the follow: ```baysor...

fengweimin-maker

Dataset Preview Issue

6

Hello, when I used my own data for preview, I met the following error, please how to solve it [19:02:47] Info: (2021-10-31) Run Baysor v0.5.0 [19:02:47] Info: Loading data... [19:02:59]...

Yao-14

Hi, First of all, great package! My issue: If I try to install using the mac binary I get the following message when trying to run the executable: ERROR: System...

CristiSoitu

Parameter question

1

Dear team, Thank you for the outstanding work! I have a question regarding the parameter. If I do -s 10, and in the toml file, I do: [Data] min-molecules-per-gene =...

Huimin721

Hello, Based on the biorxiv paper, it is suggested that Baysor can use known known cluster definitions from scRNA seq data. I dont see any option to integrate scRNA seq...

arunchakra

I am trying to use baysor with docker. I had no problem with vpetukhov/baysor:master. I could run baysor. However, when I try to use vpetukhov/baysor:latest version, there was some issue....

SeokJinYeo

・Command baysor run input.csv :cell_name -m 30 --prior-segmentation-confidence=1 --plot ・Environment: Baysor v0.6.2 (in docker) →This should not change gene assignment, however it changed a lot. In "segmentation.csv" file, "prior_segmentation" and...

SanoKyohei

`boundary_polygons` not defined. Baysor v0.6.2

3

Hello Baysor team, I tried to run Baysor in jupyter notebook, however the function `bound_polygons` mentioned elsewhere produced an error – not defined. Also I noticed that this function as...

tsvvas

Hello @VPetukhov, Thanks again for Baysor, it is a really efficient tool. I have an issue in the rare case when I don't have enough transcript count per prior cell...

quentinblampey

I `wget https://github.com/kharchenkolab/Baysor/releases/download/v0.6.2/baysor-x86_x64-linux-v0.6.2_build.zip`, unzipped it and added it to my path. I can see the help. When I use the `--version` flag, I get the literal text "nothing" instead of...

JeffreyMaurer