scverse/mantispy

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Analysis framework for morphological profiling data

Stars: 8
Forks: 0
Open beginner issues: 0
Indexed issues: 33
Avg merge: 12h 39m
Merged PRs (30d): 20

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Sep 19, 2026
Latest indexed: Sep 19, 2026
Contributing guide: Contributing guide
Code of conduct: Code of conduct
Beginner labels: No beginner labels indexed

Beginner friendly Everything

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33 open issues indexed

Document each shipped dataset: derived columns, stats, and the scripts that rebuild it Open

documentation

Difficulty 4/5 Over a week Newbie friendliness 45/100

scverse/mantispy#74 · Opened Sep 18, 2026
ECOD aggregates as pyod does, not as the paper's Algorithm 1 Open

question

Difficulty 3/5 1-2 days Newbie friendliness 68/100

scverse/mantispy#72 · Opened Sep 18, 2026
Cell-resolution tests treat cells within a well as independent replicates Open

Difficulty 5/5 Over a week Newbie friendliness 35/100

scverse/mantispy#68 · Opened Sep 18, 2026
transform_grouped reads the whole matrix to size its output, defeating the backed path Open

bug

Difficulty 2/5 1-3 hours Newbie friendliness 86/100

scverse/mantispy#67 · Opened Sep 18, 2026
Cross-fit the hit-calling covariance instead of splitting the controls in half Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 30/100

scverse/mantispy#64 · Opened Sep 18, 2026
read_export cannot link objects that share a child instead of a parent Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 64/100

scverse/mantispy#61 · Opened Sep 18, 2026
np.errstate does not suppress numpy's all-NaN RuntimeWarnings in pp/_select.py Open

Difficulty 3/5 1-2 days Newbie friendliness 74/100

scverse/mantispy#57 · Opened Sep 17, 2026
pl.transport raises IndexError on an empty transport table Open

Difficulty 2/5 1-3 hours Newbie friendliness 86/100

scverse/mantispy#55 · Opened Sep 17, 2026
pl.control_drift raises a bare IndexError at n_components=1 Open

Difficulty 1/5 Under an hour Newbie friendliness 90/100

scverse/mantispy#54 · Opened Sep 17, 2026
Add an iLISI and silhouette equivalence test against scib-metrics Open

Difficulty 3/5 1-2 days Newbie friendliness 72/100

scverse/mantispy#53 · Opened Sep 17, 2026
Migrate pp.harmony to scanpy's core harmony_integrate once 1.13 is stable Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

scverse/mantispy#52 · Opened Sep 17, 2026
Add cross-reference roles, admonitions and a standard page header Open

documentation

Difficulty 4/5 3-5 days Newbie friendliness 48/100

scverse/mantispy#48 · Opened Sep 17, 2026
Raise figure density in the tutorials Open

documentation

Difficulty 4/5 3-5 days Newbie friendliness 45/100

scverse/mantispy#47 · Opened Sep 17, 2026
Replace dict-literal result cells in the tutorials Open

documentation

Difficulty 4/5 3-5 days Newbie friendliness 65/100

scverse/mantispy#46 · Opened Sep 17, 2026
Split documentation into Tutorials, Examples and Pitfalls Open

documentation

Difficulty 5/5 Over a week Newbie friendliness 30/100

scverse/mantispy#45 · Opened Sep 17, 2026
Tutorial index is a bare toctree; landing page is the README Open

documentation

Difficulty 4/5 3-5 days Newbie friendliness 45/100

scverse/mantispy#43 · Opened Sep 17, 2026
Tutorial prose refers to warnings the docs build strips Open

documentation

Difficulty 4/5 3-5 days Newbie friendliness 68/100

scverse/mantispy#42 · Opened Sep 17, 2026
Private symbols are imported in the published tutorials Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 65/100

scverse/mantispy#38 · Opened Sep 17, 2026
No public way to stamp a hand-built AnnData Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 68/100

scverse/mantispy#37 · Opened Sep 17, 2026
Publish to PyPI and submit to scverse ecosystem-packages Open

enhancement

Difficulty 4/5 3-5 days Newbie friendliness 58/100

scverse/mantispy#36 · Opened Sep 17, 2026
Group modules in TOC Open

scverse/mantispy#27 · 1 assignee · Opened Sep 14, 2026
Use new annbatch/pertpy/etc doc style Open

scverse/mantispy#23 · 1 comment · 1 assignee · Opened Sep 14, 2026
Add logo Open

scverse/mantispy#22 · 1 assignee · Opened Sep 14, 2026
Large Cell Painting Gallery accessions in mantispy.ds Open

Difficulty 4/5 3-5 days Newbie friendliness 52/100

scverse/mantispy#21 · Opened Sep 14, 2026
pycytominer equivalence suite Open

Difficulty 4/5 3-5 days Newbie friendliness 55/100

scverse/mantispy#19 · 1 comment · Opened Sep 14, 2026
Evaluation metrics Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

scverse/mantispy#18 · 1 comment · Opened Sep 14, 2026
Feature selection and outlier detection Open

Difficulty 5/5 Over a week Newbie friendliness 35/100

scverse/mantispy#16 · Opened Sep 14, 2026
Sphering and batch correction Open

Difficulty 4/5 3-5 days Newbie friendliness 52/100

scverse/mantispy#17 · Opened Sep 14, 2026
Accessors Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

scverse/mantispy#14 · Opened Sep 14, 2026
Normalization Open

Difficulty 4/5 3-5 days Newbie friendliness 48/100

scverse/mantispy#12 · Opened Sep 14, 2026
Synthetic plate generator with injected artifacts Open

Difficulty 4/5 3-5 days Newbie friendliness 52/100

scverse/mantispy#9 · Opened Sep 14, 2026
CellProfiler feature-name parser and blocklist Open

Difficulty 3/5 1-2 days Newbie friendliness 74/100

scverse/mantispy#7 · Opened Sep 14, 2026
Schema, validation and parameter recording Open

Difficulty 4/5 3-5 days Newbie friendliness 48/100

scverse/mantispy#8 · Opened Sep 14, 2026

scverse/mantispy

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