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Package Health Score

57 / 100

security
No known security issues
popularity
Limited
maintenance
Sustainable
community
Limited

Popularity

Limited

GitHub Stars: ?
Forks: ?
Contributors: -

Direct Usage Popularity

Based on project statistics from the GitHub repository for the PyPI package dolomite-se, we found that it has been starred ? times.

Security

No known security issues

Security and license risk for latest version

Release Date: Oct 23, 2024
Direct Vulnerabilities: 0
C
0
H
0
M
0
L
Indirect Vulnerabilities: 0
C
0
H
0
M
0
L
License Risk: 0
H
0
M
0
L

All security vulnerabilities belong to production dependencies of direct and indirect packages.

License

MIT

Security Policy

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Maintenance

Sustainable

Commit Frequency

Unavailable commit data

Open Issues: ?
Open PR: ?
Last Release: 2 months ago
Last Commit: unknown

Further analysis of the maintenance status of dolomite-se based on released PyPI versions cadence, the repository activity, and other data points determined that its maintenance is Sustainable.

We found that dolomite-se demonstrates a positive version release cadence with at least one new version released in the past 3 months.

In the past month we didn't find any pull request activity or change in issues status has been detected for the GitHub repository.

Community

Limited

Readme: Yes
Contributing.md: No
Code of Conduct: No
Contributors: 0
Funding: No

This project has seen only 10 or less contributors.

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Package

Python Versions Compatibility: >=3.8

Age: 1 year
Latest Release: 2 months ago
Dependencies: 0 Direct
Versions: 9
Maintainers: 0
Wheels: OS Independent

Readme

Unit tests

Save and load SummarizedExperiments in Python

Introduction

The dolomite-se package is the Python counterpart to the alabaster.se R package, providing methods for saving/reading SummarizedExperiment or RangeSummarizedExperiment objects within the dolomite framework. All components of the SummarizedExperiment - assays, row data and column data - are saved to their respective file representations, which can be loaded in a new R/Python environment for cross-language analyses.

Quick start

Let's mock up a SummarizedExperiment:

import summarizedexperiment
import biocframe
import numpy

se = summarizedexperiment.SummarizedExperiment(
    assays={ "counts": numpy.random.rand(1000, 200) },
    row_data=biocframe.BiocFrame(
        { "foo": numpy.random.rand(1000) }, 
        row_names = ["gene" + str(i) for i in range(1000)]
    ),
    column_data=biocframe.BiocFrame(
        { "whee": numpy.random.rand(200) },
        row_names = ["cell" + str(i) for i in range(200)]
    )
)

Now we can save it:

from dolomite_base import save_object
import dolomite_se
import os
from tempfile import mkdtemp

path = os.path.join(mkdtemp(), "test")
save_object(se, path)

And load it again, e,g., in a new session:

from dolomite_base import read_object

roundtrip = read_object(path)
## Class SummarizedExperiment with 1000 features and 200 samples
##   assays: ['counts']
##   row_data: ['foo']
##   column_data: ['whee']

This also works for RangeSummarizedExperiment objects storing row_ranges to the specified path.

FAQs

What is dolomite-se?

Save and load summarized experiments in the dolomite framework!. Visit Snyk Advisor to see a full health score report for dolomite-se, including popularity, security, maintenance & community analysis.

Is dolomite-se popular?

The python package dolomite-se receives a total of 151 weekly downloads. As such, dolomite-se popularity was classified as limited. Visit the popularity section on Snyk Advisor to see the full health analysis.

Is dolomite-se safe to use?

The python package dolomite-se was scanned for known vulnerabilities and missing license, and no issues were found. Thus the package was deemed as safe to use. See the full health analysis review.

Last updated on 22 December-2024, at 10:53 (UTC).

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dolomite-se

Save and load summarized experiments in the dolomite framework! For more information about how to use this package see README

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Package Health Score

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Community

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Readme

Save and load SummarizedExperiments in Python

Introduction

Quick start

FAQs

What is dolomite-se?

Is dolomite-se popular?

Is dolomite-se safe to use?

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Package Health Score

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Commit Frequency

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Readme

Save and load SummarizedExperiments in Python

Introduction

Quick start

FAQs

What is dolomite-se?

Is dolomite-se popular?

Is dolomite-se safe to use?

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Select a recommended open source package

Scan your app for vulnerabilities

Source Code

Open Source

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