seqCAT | Bioconductor R-package for cell evaluation | Genomics library

by fasterius R Version: 1.6.0 License: Non-SPDX

X-Ray Key Features Code Snippets(2)Community Discussions(1)Vulnerabilities Install Support

kandi X-RAY | seqCAT Summary

seqCAT is a R library typically used in Artificial Intelligence, Genomics applications. seqCAT has no bugs, it has no vulnerabilities and it has low support. However seqCAT has a Non-SPDX License. You can download it from GitHub.

The High Throughput Sequencing Cell Authentication Toolkit (seqCAT) is an R-package for authenticating, evaluating and characterisation of cells using single nucleotide variants (SNVs) from sequencing data. Its input data should be on the form of VCF files, i.e. output from variant callers such as the Genome Analysis ToolKit and annotated with software such as SnpEff.

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Quality

Security

License

Reuse

Support

seqCAT has a low active ecosystem.

It has 5 star(s) with 1 fork(s). There are 2 watchers for this library.

It had no major release in the last 12 months.

There are 0 open issues and 2 have been closed. On average issues are closed in 157 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of seqCAT is 1.6.0

Quality

seqCAT has no bugs reported.

Security

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

License

seqCAT has a Non-SPDX License.

Non-SPDX licenses can be open source with a non SPDX compliant license, or non open source licenses, and you need to review them closely before use.

Reuse

seqCAT releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

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seqCAT Key Features

No Key Features are available at this moment for seqCAT.

seqCAT Examples and Code Snippets

Usage

Lines of Code : 20

License : Non-SPDX (NOASSERTION)

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1.  Creation of SNV profiles
2.  Comparisons of SNV profiles
3.  Evaluation of profile comparisons

# Load the package
library("seqCAT")

# Path to the example VCF file
vcf <- system.file("extdata", "example.vcf.gz", package = "seqCAT")

# Create

Installation

Lines of Code : 6

License : Non-SPDX (NOASSERTION)

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# install.packages("BiocManager")
BiocManager::install("seqCAT")

# install.packages("devtools")
devtools::install_github("fasterius/seqCAT")

conda install -c bioconda bioconductor-seqcat

conda search -c bioconda bioconductor-seqcat

Community Discussions

Trending Discussions on seqCAT

Expression _GEN_7 is used as a FEMALE but can only be used as a MALE

QUESTION

Expression _GEN_7 is used as a FEMALE but can only be used as a MALE

Asked 2019-Oct-02 at 18:45

I am trying to write a Scala transform for firrtl, and at some point , I have a bunch of wires which should be connected to the input port. Because the number of wires could be to high, I dont want to connect each wire with a port, but concatenate all the wires together and use a single port with a bigger width.

Im using the seqCat function :

...

ANSWER

Answered 2019-Oct-02 at 18:45

The issue is that the output of primitive operations (DoPrims) are MALE (SourceFlow in the new terminology, basically a read-only value). While notionally concatenating wires together does not necessarily mean it's read-only, in the semantics of FIRRTL it does. This is described in section 8 of the FIRRTL Spec: "The flow of all other expressions are source".

So this leaves us with the question of how to accomplish connecting a single port to several wires. You do this with multiple connections. Here is a sketch of what the code might look like but, of course, it depends on your exact types:

Source https://stackoverflow.com/questions/58197410

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

Vulnerabilities

No vulnerabilities reported

Install seqCAT

The seqCAT package is available on both Bioconductor and here on GitHub. You can install the latest, stable version from Bioconductor like so:.

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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