smpregs | Sample control genomic regions

by gatagat Python Version: Current License: No License

X-Ray Key Features Code Snippets Community Discussions Vulnerabilities Install Support

kandi X-RAY | smpregs Summary

smpregs is a Python library. smpregs has no bugs, it has no vulnerabilities and it has low support. However smpregs build file is not available. You can download it from GitHub.

build kmers.so: python setup_kmers.py build mv build/lib*/*.so ./ rm -r build. encode annotations (file with genomic annotations for dm3 is included): ./encode_annotations.py data/genomic-annotations-dm3.txt data/genomic-annotations-dm3.enc data/genomic-annotations-dm3.fa. get random regions of the same length: ./smpregs.py -r data/S2-spec.bed > out. get random regions with approx. the same GC content (at most 5bps diffrent): ./smpregs.py -r data/S2-spec.bed GC:threshold=5 > out. get random regions with the same genomic annotation at position 201: ./smpregs.py -r data/S2-spec.bed GAPos:pos=201 > out. get random regions with approx. the same genomic annotation histogram: ./smpregs.py -r data/S2-spec.bed GAHist:threshold=5 > out. combining multiple filters: ./smpregs.py -r data/S2-spec.bed -n data/genomic-annotations-dm3.fa -g dm3 GAPos:pos=201,GC:threshold=5 > out.

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Support

smpregs has a low active ecosystem.

It has 0 star(s) with 0 fork(s). There are 1 watchers for this library.

It had no major release in the last 6 months.

smpregs has no issues reported. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of smpregs is current.

Quality

smpregs has 0 bugs and 0 code smells.

Security

smpregs has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

smpregs code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

smpregs does not have a standard license declared.

Check the repository for any license declaration and review the terms closely.

Without a license, all rights are reserved, and you cannot use the library in your applications.

Reuse

smpregs releases are not available. You will need to build from source code and install.

smpregs has no build file. You will be need to create the build yourself to build the component from source.

Top functions reviewed by kandi - BETA

kandi has reviewed smpregs and discovered the below as its top functions. This is intended to give you an instant insight into smpregs implemented functionality, and help decide if they suit your requirements.

Parse filters .
Generate a sample of regions .
Tests a test list
Create a fasta file for each region .
Initializes the region acceptor .
Generator that yields tuples from file .
Generate a sequence of regions for given regions .
Generate a random region .
Configure logging .
Test the test case .

Get all kandi verified functions for this library.

smpregs Key Features

No Key Features are available at this moment for smpregs.

smpregs Examples and Code Snippets

No Code Snippets are available at this moment for smpregs.

Community Discussions

No Community Discussions are available at this moment for smpregs.Refer to stack overflow page for discussions.

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install smpregs

You can download it from GitHub.
You can use smpregs like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.

Support

For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

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