GSEApy
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zqfang
Gene Set Enrichment Analysis in Python
Hi, zqfang. I recently learned of your GSEApy and immediately tried prerank with [the data I had on hand](https://github.com/searchlie/misc/blob/main/2022-08-16-test.rnk) and compared it to results of the GSEA provided by Broad...
As title. If you got this error, try to install use `pip` bioconda channel has some issue with gseapy build for now. You have to comiple gseapy (>0.11.0) by youself...
### Setup I am reporting a problem with GSEApy version, Python version, and operating system as follows: ```python import sys; print(sys.version) import platform; print(platform.python_implementation()); print(platform.platform()) import gseapy; print(gseapy.__version__) ``` python=v3.10.5...
Hi, I tried prerank() in gseapy and I am not sure how to prepare the input dataframe. Is it necessary to sort the input dataframe in descending order ? Or...
I was wondering if there was a recommended way of using GSEApy when the analysis involves comparing more than 2 sample classes. e.g. control Vs class1, control Vs class2 ........
Hello. Thanks for this great py. I have 2 questions. 1. How can I produce gsea reports for positive and negative for cytoscape? Desktop version of GSEA produce 'gsea_report_for_na_neg_1650562911301.tsv' and...
Hi, Thanks to implement GSEA on python, it's now quicker to perform analyses. Please note a bug with gseapy.prerank. With default parameters and when the ranked list is small (...
Hi there, I used your package to review some publication work. It is really a fantastic work. May I suggest some new features about the plotting part. The genes in...
Hi,zqfang. Thanks for your GSEApy that i'am looking for There are some questions while i am using it and hope that you could help. 1. I calculated test data (P53.txt)...
I meet this error when I intend to run GSEA on my python. Could you please suggest me some solutions? Thanks a lot.
