Giter Club home page Giter Club logo

Comments (2)

rachebouche avatar rachebouche commented on September 28, 2024

I have the same error
python = 3.11
pandas = 2.0.3
code :

gene_symbols = ['GNAI1', 'SPP1', 'IKZF1', 'TGFBR2', 'TLR4', 'MBOAT7', 'CCNB2', 'MYLK', 'CDKN1A', 'ZNF586', 'WASHC4', 'SRC', 'UGDH', 'CDK6', 'HMG20B']

gp.enrichr(gene_list=gene_symbols, gene_sets="GO_Biological_Process_2023", outdir=None)

It seems to be an error related to pandas. Maybe it could be corrected by using pandas.concat() instead of pandas.DataFrame.append() ?


AttributeError Traceback (most recent call last)
/tmp/ipykernel_98143/1600401673.py in ?()
----> 1 gp.enrichr(gene_list=gene_symbols, gene_sets="GO_Biological_Process_2023", outdir=None, )

~/miniconda3/envs/dataproc/lib/python3.11/site-packages/gseapy/enrichr.py in ?(gene_list, gene_sets, description, outdir, cutoff, format, figsize, top_term, no_plot, verbose)
299 :return: An Enrichr object, which obj.res2d contains your enrichr query.
300 """
301 enr = Enrichr(gene_list, gene_sets, description, outdir,
302 cutoff, format, figsize, top_term, no_plot, verbose)
--> 303 enr.run()
304
305 return enr

~/miniconda3/envs/dataproc/lib/python3.11/site-packages/gseapy/enrichr.py in ?(self)
169 shortID, res = self.get_results(genes_list)
170 # Remember gene set library used
171 res["Gene_set"] = self._gs
172 # Append to master dataframe
--> 173 self.results = self.results.append(res, ignore_index=True)
174 self.res2d = res
175 sleep(2)
176 if self._outdir is None: continue

~/miniconda3/envs/dataproc/lib/python3.11/site-packages/pandas/core/generic.py in ?(self, name)
...
5987 ):
5988 return self[name]
-> 5989 return object.getattribute(self, name)

AttributeError: 'DataFrame' object has no attribute 'append'

from gseapy.

zqfang avatar zqfang commented on September 28, 2024

Hello, could you please update GSEApy to the latest version? This should fix the issue we are currently experiencing. Thank you.

from gseapy.

Related Issues (20)

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.