pepr | Pipeline for Evaluating Prokaryotic References | Genomics library

by usnistgov Python Version: Current License: No License

X-Ray Key Features Code Snippets Community Discussions(1)Vulnerabilities Install Support

kandi X-RAY | pepr Summary

pepr is a Python library typically used in Healthcare, Pharma, Life Sciences, Artificial Intelligence, Genomics applications. pepr has no bugs, it has no vulnerabilities and it has low support. However pepr build file is not available. You can download it from GitHub.

The evaluation pipeline is first used to refine the user provided reference genome, and the characterization pipeline then characterizes the refined reference genome. The genomic purity pipeline is independent of the evaluation and characterization pipeline and is used to identify contaminant DNA. After the running PEPR evaluation, characterization, and genomic_purity pipelines the R package peprr (is used to generate a SQLite database peprDB with the results for use in downstream analysis. peprDB is used to generate a generic Report of Analysis.

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Quality

Security

License

Reuse

Support

pepr has a low active ecosystem.

It has 10 star(s) with 0 fork(s). There are 6 watchers for this library.

It had no major release in the last 6 months.

There are 9 open issues and 0 have been closed. On average issues are closed in 1805 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of pepr is current.

Quality

pepr has no bugs reported.

Security

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

License

pepr 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

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

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

Installation instructions are not available. Examples and code snippets are available.

Top functions reviewed by kandi - BETA

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

Main entry point for samtools .
Run genome characterization pipeline .
Run genome evaluation pipeline .
Wrapper for sra_get_fastq
Define mapping for mapping .
Realignment around indels .
Run variant calls for pairwise variant calls .
run the germline_purity pipeline
initialize analysis
Convert sam to bam .

Get all kandi verified functions for this library.

pepr Key Features

No Key Features are available at this moment for pepr.

pepr Examples and Code Snippets

No Code Snippets are available at this moment for pepr.

Community Discussions

Trending Discussions on pepr

How to Json Decode in PHP using Services_JSON package of pear(PHP Catchable fatal error: Object of class stdClass could not be converted to string )

QUESTION

How to Json Decode in PHP using Services_JSON package of pear(PHP Catchable fatal error: Object of class stdClass could not be converted to string )

Asked 2017-Sep-12 at 05:53

I want to encode/decode an array using JSON . As i have php 5.1.6 , i am using pear's (http://pear.php.net/pepr/pepr-proposal-show.php?id=198) package. Using it i can encode but , i am unable to decode i tried to read the doc , but didn't understand anything.Here is my code:

...

ANSWER

Answered 2017-Sep-12 at 05:53

When you have array/object you need to display it using print_r / var_dump. print is used for string

Source https://stackoverflow.com/questions/46168625

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

Vulnerabilities

No vulnerabilities reported

Install pepr

You can download it from GitHub.
You can use pepr 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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