blitzgsea

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are there cases for significantly enriched pathways found without any genes in leading edges?

2

could you please explain the logic behind such cases?

tom-gome

Hi Alex, Should the returned `running_sum` be an array instead of zero in this line? https://github.com/MaayanLab/blitzgsea/blob/54ca73de4c89be3824562f2ef8998aa0f179fbf7/blitzgsea/__init__.py#L49 I ran into error when sum_hit_scores == 0. It turns out that this line...

chienhsiang

ValueError: x and y arrays must be equal in length along interpolation axis.

1

I tried to repro this and had a hard time -- seems to only happen when I'm multithreading, which makes attribution/reprex difficult. Nonetheless figured it was worth the report. ```{pytb}...

scottgigante-immunai

Is there any chance that you can implement DGSEA in python as part of your package? - https://academic.oup.com/bioinformatics/article/36/21/5247/5874441 - https://jamesjoly.github.io/DGSEA/about/ - https://github.com/JamesJoly/DGSEA (developed by @JamesJoly in R)

abearab

I am implementing TGCN in python and need to run GSEA on very small sets (10-100) and running into the error below. I have attached the signature and gene sets...

terynin

Gene set size?

1

What does the column `geneset_size` actually represent in the output ? I had initially thought it is the total number of genes that are present in a given geneset. But...

robinpaul85

Non reproducible run time error from scipy

2

When I run blitzgsea, I get a weird runtime error from scipy which has something to do with matrix multiplication. I have updated to the latest blitzgsea version but the...

robinpaul85