freebayes | Bayesian haplotype-based genetic polymorphism discovery | Genomics library

by freebayes C++ Version: v1.3.7 License: MIT

X-Ray Key Features Code Snippets Community Discussions(4)Vulnerabilities Install Support

kandi X-RAY | freebayes Summary

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

freebayes is a Bayesian genetic variant detector designed to find small polymorphisms, specifically SNPs (single-nucleotide polymorphisms), indels (insertions and deletions), MNPs (multi-nucleotide polymorphisms), and complex events (composite insertion and substitution events) smaller than the length of a short-read sequencing alignment.

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Quality

Security

License

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Support

freebayes has a low active ecosystem.

It has 685 star(s) with 257 fork(s). There are 46 watchers for this library.

It had no major release in the last 12 months.

There are 29 open issues and 618 have been closed. On average issues are closed in 316 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of freebayes is v1.3.7

Quality

freebayes has no bugs reported.

Security

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

License

freebayes is licensed under the MIT License. This license is Permissive.

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

Reuse

freebayes releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

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freebayes Key Features

No Key Features are available at this moment for freebayes.

freebayes Examples and Code Snippets

No Code Snippets are available at this moment for freebayes.

Community Discussions

Trending Discussions on freebayes

Apply across rows in dbplyr (postgresql). Getting "Error: Unknown input type: pairlist"

snakemake adjust timelimit based on restart attempt

Merge vcf files in snakemake

Can't find package module after installation

QUESTION

Apply across rows in dbplyr (postgresql). Getting "Error: Unknown input type: pairlist"

Asked 2021-Jan-15 at 08:47

I'm trying to filter on a condition that at least one of three columns has a value other than "".

My code works on a data.frame (or tibble), but on a raw DBI table I get an error:

Error: Unknown input type: pairlist

...

ANSWER

Answered 2021-Jan-15 at 08:47

Turns out only #3 (from below) works on DBI tables.

Source https://stackoverflow.com/questions/65732502

QUESTION

snakemake adjust timelimit based on restart attempt

Asked 2021-Jan-08 at 11:52

I have a workflow that requires an embarrassingly parallel step with different resource requirements (memory and time) for a slurm cluster. I decorated the workflow as per documentation:

...

ANSWER

Answered 2021-Jan-08 at 11:52

I have just noticed what I was doing wrong. My cluster.json was overriding the request because of the following line:

Source https://stackoverflow.com/questions/65628236

QUESTION

Merge vcf files in snakemake

Asked 2020-Oct-21 at 15:30

After running the variant calling, I would like to merge only specific outputs as shown in d. This is giving me an error of missing input files. How to solve this?

...

ANSWER

Answered 2020-Oct-21 at 15:30

The output of varcall is

Source https://stackoverflow.com/questions/64465062

QUESTION

Can't find package module after installation

Asked 2019-Feb-09 at 23:17

I installed the package in the following way:

...

ANSWER

Answered 2019-Feb-09 at 22:40

I think it should be:

Source https://stackoverflow.com/questions/54611500

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

Vulnerabilities

No vulnerabilities reported

Install freebayes

freebayes is provided as a pre-built 64-bit static Linux binary as part of releases. Debian and Conda packages should work too, see the badges at the top of this page. To build freebayes from source check the development section below. It is important to get the full recursive git checkout and dependencies.