match maelstrom cli and api defaults + docstring

vanheeringen-lab · Dec 19, 2022 · ecd4806 · ecd4806
1 parent f414657
commit ecd4806
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Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/gimmemotifs/commands/maelstrom.py b/gimmemotifs/commands/maelstrom.py
@@ -11,7 +11,7 @@
 
 
 def maelstrom(args):
- """Run the maelstrom method."""
+ """Find differential motifs."""
  infile = args.inputfile
  genome = args.genome
  outdir = args.outdir

diff --git a/gimmemotifs/maelstrom/__init__.py b/gimmemotifs/maelstrom/__init__.py
@@ -60,18 +60,18 @@ def run_maelstrom(
  ncpus=None,
  zscore=True,
  gc=True,
- center=False,
+ center=True,
  aggregation="int_stouffer",
  plot_all_motifs=False,
  plot_no_motifs=False,
  random_state=None,
 ):
- """Run maelstrom on an input table.
+ """Find differential motifs.
 
  Parameters
  ----------
  infile : str
- Filename of input table. Can be either a text-separated tab file or a
+ Filename of input table. Can be either a tab-separated text file or a
  feather file.
 
  genome : str