SAMap

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Numba Dispatcher Issue with sm.run()

15

Hi, I'm attempting to integrate two datasets and I'm running into two issues. I don't think they are related but wanted to include my efforts to solve the first incase...

mikepassal

Bug to run the SAMap algorithm

10

I am trying to run the SAMap algorithm using the commands shown in the SAMap tutorial (All data and commands were obtained from SAMap tutorial). But command fail with the...

xiangyuma1995

sankey and chord plot error

19

I am trying to make a sankey plot and a chord plot using the commands shown in the SAMap tutorial. Both commands fail with the following error message: ``` WARNING:param.notebook_extension:...

dsb66

How to process the raw h5ad?

3

I think the tutorial in Jupyter notebook is unclear that it took me a while to realize how to preprocess my raw .h5ad to a SAM object...And I actually found...

jordan841220

Hi @atarashansky, We are using SAMap to compare Drosophila and Anopheles data. So far we are happy with the analyses but we struggle to smartly extract the pairs data to...

silvainp

Reproducibility and seeding

1

Hi @atarashansky, Thank you for this great tool! I noticed that there is a degree of randomness to the sm.run function. I get slightly different values for the correlation homology...

dariotommasini

how sankey_plot show more than four species

7

Hi Alec, How can I display more than four species using a sankey_plot? Thank you for your help !

xmChen090

"ValueError: could not convert string to float" in convert_eggnog_to_homologs()

1

Dear @atarashansky, I encountered an error when running the convert_eggnog_to_homologs() function. I would be very glad if you could help me solve this issue. Best regards, Pietro `EGGs={'mm':mm_ort, 'hg': hg_ort}...

Zaffe24

conda install: can't import samap

1

This is how I installed samap: ``` conda create -y -n samap-1.0.15 -c bioconda samap=1.0.15 ``` Then, I wanted to test it: ``` conda activate samap-1.0.15 python3 -c 'import samap'...

jowodo

Hi, it would be really nice if you could - additionally to the versioning in the README - tag the version. It should be [very](https://stackoverflow.com/questions/4404172/how-to-tag-an-older-commit-in-git) [easy](https://stackoverflow.com/questions/29830544/how-do-i-add-a-tag-to-a-github-commit). Also, I noted, that...

jowodo