howard | HOWARD annotates ( using ANNOVAR | Data Labeling library

by bioinfo-chru-strasbourg Perl Version: 0.9.15.6 License: AGPL-3.0

X-Ray Key Features Code Snippets Community Discussions(3)Vulnerabilities Install Support

kandi X-RAY | howard Summary

howard is a Perl library typically used in Artificial Intelligence, Data Labeling applications. howard has no bugs, it has no vulnerabilities, it has a Strong Copyleft License and it has low support. You can download it from GitHub.

howard annotates and prioritizes genetic variations, calculates and normalizes annotations, translates vcf format and generates variants statistics. howard annotation is mainly based on annovar and snpeff tools to annotate, using available databases (see annovar and snpeff) and home made databases. it also uses bcftools to annotate variants with a vcf file. annovar and snpeff databases are automatically downloaded if needed. howard calculation harmonizes allele frequency (vaf), extracts nomen (transcript, cnomen, pnomen…) from hgvs fields with an optional list of personalized transcripts, generates varank format barcode. howard prioritization algorithm uses profiles to flag variants (as passed or filtered), calculate a prioritization score, and automatically generate a comment for each variants (example: 'polymorphism identified in dbsnp. associated to lung cancer. found in clinvar database').prioritization profiles are defined in a

Support

Quality

Security

License

Reuse

Support

howard has a low active ecosystem.

It has 2 star(s) with 0 fork(s). There are 1 watchers for this library.

It had no major release in the last 12 months.

There are 17 open issues and 23 have been closed. On average issues are closed in 1 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of howard is 0.9.15.6

Quality

howard has no bugs reported.

Security

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

License

howard is licensed under the AGPL-3.0 License. This license is Strong Copyleft.

Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

Reuse

howard releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

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howard Key Features

No Key Features are available at this moment for howard.

howard Examples and Code Snippets

No Code Snippets are available at this moment for howard.

Community Discussions

Trending Discussions on Data Labeling

How can I do this split process in Python?

Replacing a character with a space and dividing the string into two words in R

Azure ML FileDataset registers, but cannot be accessed for Data Labeling project

QUESTION

How can I do this split process in Python?

Asked 2021-Dec-30 at 14:06

I'm trying to make a data labeling in a table, and I need to do it in such a way that, in each row, the index is repeated, however, that in each column there is another Enum class.

What I've done so far is make this representation with the same enumerator class.

A solution using the column separately as a list would also be possible. But what would be the best way to resolve this?

...

ANSWER

Answered 2021-Dec-30 at 13:57

Instead of using Enum you can use a dict mapping. You can avoid loops if you flatten your dataframe:

Source https://stackoverflow.com/questions/70532286

QUESTION

Replacing a character with a space and dividing the string into two words in R

Asked 2020-Nov-18 at 07:32

I have a dataframe that contains a column that includes strings separeted with semi-colons and it is followed by a space. But unfortunately in some of the strings there is a semi-colon that is not followed by a space.

In this case, This is what i'd like to do: If there is a space after the semi-colon we do not need a change. However if there are letters before and after the semi-colon, we should change semi-colon with space

i have this:

...

ANSWER

Answered 2020-Nov-16 at 07:24

Try something like:

Source https://stackoverflow.com/questions/64853962

QUESTION

Azure ML FileDataset registers, but cannot be accessed for Data Labeling project

Asked 2020-Oct-28 at 20:31

Objective: Generate a down-sampled FileDataset using random sampling from a larger FileDataset to be used in a Data Labeling project.

Details: I have a large FileDataset containing millions of images. Each filename contains details about the 'section' it was taken from. A section may contain thousands of images. I want to randomly select a specific number of sections and all the images associated with those sections. Then register the sample as a new dataset.

Please note that the code below is not a direct copy and paste as there are elements such as filepaths and variables that have been renamed for confidentiality reasons.

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ANSWER

Answered 2020-Oct-27 at 22:39

Is the data behind virtual network by any chance?

Source https://stackoverflow.com/questions/64546521

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

Vulnerabilities

No vulnerabilities reported

Install howard

In order to build, setup and create a persitent CLI (running container), docker-compose command build images and launch services as containers. A setup container (HOWARD-setup) automatically downloads required databases according to an HOWARD VCF example annotation using ANNOVAR and snpEff. Configuration of host data and databases folders (default ${HOME}/HOWARD), assembly and databases to download in .env file. See HOWARD, ANNOVAR and snpEff documentation for custom databases download.
The Dockerfile provided with this package provides everything that is needed to build the image. The build system must have Docker installed in order to build the image.

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 .

Find more information at: