Skip to content

Fix AttributeError when design is a DataFrame #443

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
grst merged 1 commit into from
Apr 21, 2026
Merged

Fix AttributeError when design is a DataFrame #443

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
18 changes: 16 additions & 2 deletions pydeseq2/dds.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -575,11 +575,25 @@ def cond(self, **kwargs):
ndarray
A contrast vector that aligns to the columns of the design matrix.
"""
return self.formulaic_contrasts.cond(**kwargs)
try:
return self.formulaic_contrasts.cond(**kwargs)
except AttributeError:
raise AttributeError(
"The cond() method requires a formula-based design. "
"When using a precomputed design matrix (DataFrame), "
"pass the contrast vector directly instead."
) from None

def contrast(self, *args, **kwargs):
"""Get a contrast for a simple pairwise comparison."""
return self.formulaic_contrasts.contrast(*args, **kwargs)
try:
return self.formulaic_contrasts.contrast(*args, **kwargs)
except AttributeError:
raise AttributeError(
"The contrast() method requires a formula-based design. "
"When using a precomputed design matrix (DataFrame), "
"pass the contrast vector directly instead."
) from None

def fit_size_factors(
self,
Expand Down
Loading