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Package Health Score

? / 100

security
Pending…
popularity
Pending…
maintenance
Pending…
community
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Popularity

Pending…

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

Pending…

Security and license risk for latest version

Release Date: Oct 23, 2024
Direct Vulnerabilities: 0
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0
H
0
M
0
L
Indirect Vulnerabilities: 0
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0
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0
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0
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License Risk: 0
H
0
M
0
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All security vulnerabilities belong to production dependencies of direct and indirect packages.

License

MIT

Security Policy

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Maintenance

Pending…

Commit Frequency

Unavailable commit data

Open Issues: ?
Open PR: ?
Last Release: 1 month 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 Pending….

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

Pending…

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: 1 month ago
Dependencies: 0 Direct
Versions: 9
Maintainers: 1
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 ? weekly downloads. As such, dolomite-se popularity was classified as a pending…. Visit the popularity section on Snyk Advisor to see the full health analysis.

Is dolomite-se safe to use?

Last updated on 24 November-2024, at 11:33 (UTC).

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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?

Build a secure application checklist

Select a recommended open source package

Scan your app for vulnerabilities

Source Code

Open Source

Container

Config

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