flexbar | flexible barcode and adapter removal | Genomics library

by seqan C++ Version: v3.5.0 License: BSD-3-Clause

X-Ray Key Features Code Snippets(3)Community Discussions(2)Vulnerabilities Install Support

kandi X-RAY | flexbar Summary

flexbar is a C++ library typically used in Artificial Intelligence, Genomics applications. flexbar has no bugs, it has no vulnerabilities, it has a Permissive License and it has low support. You can download it from GitHub.

The program Flexbar preprocesses high-throughput sequencing data efficiently. It demultiplexes barcoded runs and removes adapter sequences. Several adapter removal presets for Illumina libraries are included. Flexbar computes exact overlap alignments using SIMD and multicore parallelism. Moreover, trimming and filtering features are provided, e.g. trimming of homopolymers at read ends. Flexbar increases read mapping rates and improves genome as well as transcriptome assemblies. Unique molecular identifiers can be extracted in a flexible way. The software supports data in fasta and fastq format from multiple sequencing platforms. Refer to the manual or contact Johannes Roehr for support with this application.

Support

Quality

Security

License

Reuse

Support

flexbar has a low active ecosystem.

It has 70 star(s) with 25 fork(s). There are 9 watchers for this library.

It had no major release in the last 12 months.

There are 9 open issues and 23 have been closed. On average issues are closed in 66 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of flexbar is v3.5.0

Quality

flexbar has no bugs reported.

Security

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

License

flexbar is licensed under the BSD-3-Clause License. This license is Permissive.

Permissive licenses have the least restrictions, and you can use them in most projects.

Reuse

flexbar releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

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flexbar Key Features

No Key Features are available at this moment for flexbar.

flexbar Examples and Code Snippets

Program usage

C++

Lines of Code : 6

License : Permissive (BSD-3-Clause)

Copy

flexbar -r reads [-b barcodes] [-a adapters] [options]

flexbar -r reads.fq -t target -q TAIL -qf i1.8

flexbar -r reads.fq -b barcodes.fa -bt LTAIL

flexbar -r reads.fq -a adapters.fa -ao 3 -ae 0.1

flexbar -r r1.fq -p r2.fq -a a1.fa -a2 a2.fa -ap O

Building from source

C++

Lines of Code : 6

License : Permissive (BSD-3-Clause)

Copy

tar xzf flexbar-3.5.0.tar.gz
tar xJf seqan-library-2.4.0.tar.xz

mv seqan-library-2.4.0/include flexbar-3.5.0

cd flexbar-3.5.0
cmake .
make

Binaries

C++

Lines of Code : 2

License : Permissive (BSD-3-Clause)

Copy

export LD_LIBRARY_PATH=/YourPath/flexbar-3.5.0-linux:$LD_LIBRARY_PATH

export DYLD_LIBRARY_PATH=/YourPath/flexbar-3.5.0-macos:$DYLD_LIBRARY_PATH

Community Discussions

Trending Discussions on flexbar

How to call child component method from parent

How do I get this child element with overflow auto to show when the parent is overflow hidden?

QUESTION

How to call child component method from parent

Asked 2019-Oct-02 at 08:02

In my Reactjs app, I need to have a parent component (a wizard) named Wizard.js and a number of child components (steps of the wizard) named PrimaryForm.js, SecondaryForm.js etc. They all are Class based components with some local validation functions.

Previous and Next buttons to advance the steps, reside in the Wizard.js.

To advance the next step of the wizard, I'm trying to call a method from PrimaryForm. I checked similar questions in Stackoverflow; tried using ref or forwardRef, but I could not make it work. I currently receive "TypeError: Cannot read property 'handleCheckServer' of null" error.

Below are my parent and child classes. Any help about what I would be doing wrong is appreciated.

Wizard.js:

...

ANSWER

Answered 2019-Oct-02 at 08:02

Example in Typescript. The idea is that the parent passes its callback to the child. The child calls the parent's callback supplying its own e.g. child callback as the argument. The parent stores what it got (child callback) in a class member variable and calls it later.

Source https://stackoverflow.com/questions/58180866

QUESTION

How do I get this child element with overflow auto to show when the parent is overflow hidden?

Asked 2017-Aug-13 at 22:49

Fiddle here

As you can see I'm trying to create a full screen overlay navigation. I have set the body height to 200%, and when the overlay nav shows I set the body to overflow: hidden;.

I've also set the important overlay navigation properties to:

...

ANSWER

Answered 2017-Aug-13 at 22:49

I think in the long run, messing with height (150%, 200%) is going to affect your layout. I forked your JSFiddle, and changed the heights back to 100%. I also used overflow-x: scroll, which I think should solve your issue if I am understanding your question correctly.

Fiddle: https://jsfiddle.net/52gsf85c/

Source https://stackoverflow.com/questions/45665508

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

Vulnerabilities

No vulnerabilities reported

Install flexbar

Flexbar source code as well as binaries for Linux and Mac OS can be downloaded on the release page. Please follow instructions for building or setup of binaries below. Additionally, Flexbar is available via package manager on Debian systems, in Homebrew, and in Bioconda. Versions before 2.4 can be found on the old page.
Debian: sudo apt install flexbar
Homebrew: brew install brewsci/science/flexbar
Bioconda: conda install -c bioconda flexbar
For execution of provided Flexbar binaries, the corresponding TBB library has to be available. Downloads contain the library file for runtime. Follow the platform specific instructions below.

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: