NGB | New Genome Browser - a Web - based NGS data viewer | Genomics library

 by   epam Java Version: v2.7.1 License: MIT

kandi X-RAY | NGB Summary

kandi X-RAY | NGB Summary

NGB is a Java library typically used in Artificial Intelligence, Genomics applications. NGB has no bugs, it has no vulnerabilities, it has build file available, it has a Permissive License and it has low support. You can download it from GitHub.

New Genome Browser (NGB) is a Web client-server tool that has been developed with the several key distinctive features in mind:. We have done our best to make those features at the highest possible level and thus make NGB one the best web-based genome browser. The community lead by EPAM intends to develop NGB extending it functionality and improving user experience. Your suggestions and comments are welcome. We believe that NGB (being a namesake of a Neuroglobin (NGB) gene, coding a protein that is involved in oxygen transport in the brain) will help researchers and clinicians to discover the valuable insights in the huge volumes of genomic data.
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            kandi-support Support

              NGB has a low active ecosystem.
              It has 140 star(s) with 41 fork(s). There are 30 watchers for this library.
              OutlinedDot
              It had no major release in the last 12 months.
              There are 211 open issues and 171 have been closed. On average issues are closed in 102 days. There are 58 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of NGB is v2.7.1

            kandi-Quality Quality

              NGB has 0 bugs and 0 code smells.

            kandi-Security Security

              NGB has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.
              NGB code analysis shows 0 unresolved vulnerabilities.
              There are 0 security hotspots that need review.

            kandi-License License

              NGB is licensed under the MIT License. This license is Permissive.
              Permissive licenses have the least restrictions, and you can use them in most projects.

            kandi-Reuse Reuse

              NGB releases are available to install and integrate.
              Build file is available. You can build the component from source.
              Installation instructions, examples and code snippets are available.
              NGB saves you 79010 person hours of effort in developing the same functionality from scratch.
              It has 87500 lines of code, 5407 functions and 1401 files.
              It has medium code complexity. Code complexity directly impacts maintainability of the code.

            Top functions reviewed by kandi - BETA

            kandi has reviewed NGB and discovered the below as its top functions. This is intended to give you an instant insight into NGB implemented functionality, and help decide if they suit your requirements.
            • Creates a Lucene document from a VCF index entry
            • Adds the extra feature fields to the document
            • Adds the VCF document info fields to the given document
            • Adds view field to document
            • Load user by SAML
            • Read saml roles mapping
            • Create groups not already existing
            • Creates an index for a gene
            • Creates the gene compressed index
            • Gets information about a gene track
            • Retrieves the contents of an Acl
            • Extracts the int v from a string
            • Processes a line
            • Parse the crovers file
            • Gets the required fields
            • Process record
            • Create a VCF index entry from a document
            • Verifies that the input arguments are valid
            • Verify that the input arguments are valid
            • Read the header of the index file
            • Export the variations for a given VCF file
            • Splits the given Wig file
            • Executes the command
            • Filters the variations for a given VCF file
            • Filters a list of VCF files in a given project
            • Load server parameters
            Get all kandi verified functions for this library.

            NGB Key Features

            No Key Features are available at this moment for NGB.

            NGB Examples and Code Snippets

            No Code Snippets are available at this moment for NGB.

            Community Discussions

            QUESTION

            ngx-datepicker header empty
            Asked 2021-Jun-02 at 12:06

            I am trying to use ngx-datepicker but whatever I do am getting the header(datepicker navigation section) empty.

            expected outcome:
            https://i.stack.imgur.com/4dBOO.png
            current result:
            https://i.stack.imgur.com/UMjnY.png
            https://i.stack.imgur.com/yhpOu.png

            my date picker component code:

            • template code:

            • component.ts

              ...

            ANSWER

            Answered 2021-May-10 at 14:50

            solved after running npm install @angular/localize
            then adding import '@angular/localize/init'; to polyfills.ts

            Source https://stackoverflow.com/questions/67469266

            QUESTION

            Angular 12 - Changing value of injected component not updating html
            Asked 2021-May-25 at 08:36

            I started using dependency injection to inject an AlertComponent in all my Component to be able to show alert everywhere but I can't make it work...

            AlertComponent :

            ...

            ANSWER

            Answered 2021-May-25 at 08:36

            I found a solution, I don't know if it's the best :

            In DocumentDownloadComponent I changed alerte: AlertComponent = null to @ViewChild(AlertComponent) alerte: AlertComponent; (no need to instantiate it in constructor anymore).

            I also had to add the selector in DocumentDownloadComponent html, in my case.

            Source https://stackoverflow.com/questions/67677658

            QUESTION

            ngb date picker date format and display change
            Asked 2021-May-24 at 05:59

            I am uisng ngb date picker. this is my html

            ...

            ANSWER

            Answered 2021-May-22 at 15:54

            There is a very interesting answer on this post : How to change ngbDatepicker date format from JSON to YYYY/MM/DD

            You need to create an adapter to transform the NgbDateStruct to the string format that you want and to convert string to NgbDateStruct, then you add it in your providers

            Edit to answer your question in the comment :

            To create a service and use it everywhere you want you first create a service like that :

            Source https://stackoverflow.com/questions/67651004

            QUESTION

            How to not display subcomponent if it's empty without using *ngIf in it's parent?
            Asked 2021-May-18 at 13:44

            I have a following problem:

            There is a Component A with a Subcomponent B.

            ...

            ANSWER

            Answered 2021-May-18 at 13:07

            I solved it this way:

            Added host class condition on my alertMessage value in Subcomponent B component decorator

            Source https://stackoverflow.com/questions/67586860

            QUESTION

            Angular how can I add paginaton in a custom table
            Asked 2021-May-18 at 11:03

            I have a simple html table in which I am showing data by ngFor directive. What I am trying to look for is to add pagination but I am not sure how can I bind this pagination with a table.

            My code

            ...

            ANSWER

            Answered 2021-May-18 at 11:03

            subscribe to ngb-pagination's pageChange event and instead of looping through all the element of the data array loop only through selected page.

            Example: https://www.codegrepper.com/code-examples/typescript/pagination+using+ngb-pagination+example

            Source https://stackoverflow.com/questions/67584831

            QUESTION

            Angular json data isnt showing in table
            Asked 2021-May-18 at 09:51

            I have a simple table i need to show data from json but its showing blank i have fixed data in json format in .ts i just need to show it on html.

            My html code

            ...

            ANSWER

            Answered 2021-May-18 at 09:51

            You need to set data variable to the class property in the following way:

            Source https://stackoverflow.com/questions/67583779

            QUESTION

            rateChange on ngb-raring fired while page is on initialization
            Asked 2021-May-10 at 06:52

            I am very new to angular, I am trying to send a new Rate to the dataBase using rateChange in ngb-rating but it have been fired while it gitting the values from the server for example when I try to console.log the Rate it print the rate that I am getting from the DataBase.

            this is the Html Templet:

            ...

            ANSWER

            Answered 2021-May-10 at 06:52

            The ng-bootstrap is actually lying to us. Looking into the rating sources code I see the rateChange is emitted whenever the rating value is changed even if the user is not involved.

            I see only one solution - leverage the reactive forms. You might subscribe to the valueChanges observable after the initial value is set.

            Source https://stackoverflow.com/questions/67453351

            QUESTION

            How to Validate Forms inside an ngb-accordion
            Asked 2021-Apr-28 at 14:25

            I have implemented an ngb-accordion which contains a form inside it with a couple of input fields. I want to display an icon with a checkmark when the form is valid(in this case when all forms are just filled without empty fields) and in all other cases it displays a 'X' mark icon. These icons appear in the ngb-panel heading just before the title.

            I assigned required property to all fields and a method in the component file checks if the form is valid or not.

            SCSS and HTML files-

            ...

            ANSWER

            Answered 2021-Apr-28 at 14:25

            While your check function is called myFormIsInvalid it's actually returning true if the form IS valid. So first of all change your function:

            Source https://stackoverflow.com/questions/67301337

            QUESTION

            error TS2339 while accessing an ngform outside a div
            Asked 2021-Apr-28 at 05:14

            I have an angular project where I used ngb-accordion from ng-bootstrap to display some details. My accordion is responsive. I have included forms inside each accordion. I have a requirement where I want to display a specific icon above the accordion panel depending on whether the form inside is valid or invalid. Like when the form is filled inside the accordion I would like to display a bootstrap tick icon , if it is wrong then I want it to display a cross mark icon. I tried writing a ngIf directive that checks whether the form is valid or not for the div containing icon.

            Below is the code where i tried to implement the above said functionality for one accordion

            HTML File

            ...

            ANSWER

            Answered 2021-Apr-28 at 05:14

            The form is not available at this position, as it is located deeper in the nested structure and you are outside of it.

            You can achieve what you want with the ViewChild-directive and a method. I'll show you how.

            Step I

            Get the ViewChild of your form in your TS-file.

            Source https://stackoverflow.com/questions/67290015

            QUESTION

            ng-bootstrap: ngb-datepicker initial value with angular reactive form group is not getting set
            Asked 2021-Apr-27 at 12:30
            1. I am working with ngb-datepicker which is working fine if no initial values or predefined values are set but when trying to use it formControlName or with [(ngModel)] with an existing predefined value the predefined or initial value is not setting on the redenied view. Imagine this as a scenario of editing a form or record with prefilled values. Other formControls with text and numbers are working as intended.
            2. I am using NgbStruct Model but still not working.
            3. I tried and debugged the code the value are getting assigned to the form control in a patchValue method and in the format of NgbStruct but not seen in the rendered view
            4. I tried to implement similar scenario in example provided in stack blitz by ng-bootstrap it is working fine there

            Package.json file

            ...

            ANSWER

            Answered 2021-Apr-27 at 12:29

            Actually there is no issue in the code this issue was being faced due to custom NgbDateAdapter which was provided in the core.module.ts which was imported in app.module.ts which was interrupting the default "fromModel" method of NgbDateAdapter with custom method. Actually I was unaware of this was being done as I was using #JHIPSTER form my project and this was done by jhipster datePickerUtility

            Source https://stackoverflow.com/questions/66770209

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

            Vulnerabilities

            No vulnerabilities reported

            Install NGB

            Docker image is used to build and run NGB for a quickstart. Other build and run options are described at installation section of NGB documentation. Make sure docker is installed. If docker is not installed, please follow docker engine installation guide for your operating system. Build sources and package binaries into docker container. Image with name ngb:latest will be created. Verify that it was created correctly. Run NGB from a created image. Verify that NGB is up and running: navigate with your web-browser to http://localhost:8080/catgenome. Please note that the following web-browsers are supported at the moment. Default NGB page should be shown. That's it. Now NGS files could be added and viewed. Please refer to NGB Command Line Interface - Typical tasks to register genome and NGS files.
            Chrome (>= 56)
            Firefox (>= 51)
            Safari (>= 9)
            EDGE (>= 25)
            NGB binaries can be retrieved from the following locations:.
            Releases: GitHub Releases: https://github.com/epam/NGB/releases Direct HTTP links: Release versions
            Development builds (created from develop branch - each commit): Development versions
            Gradle build script is provided for building NGB components. All tasks could be combined. Build artifacts are placed into dist/ folder in a root level of a cloned repository. If this script does not fit - each component could be built on it's own. Build process for each component is described in a appropriate README file, located in the component's folder.

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