SAMSA | SAMSA pipeline , version | Genomics library

by transcript Python Version: v1.0 License: No License

X-Ray Key Features Code Snippets(1)Community Discussions(7)Vulnerabilities Install Support

kandi X-RAY | SAMSA Summary

SAMSA is a Python library typically used in Artificial Intelligence, Genomics applications. SAMSA has no bugs, it has no vulnerabilities and it has low support. However SAMSA build file is not available. You can download it from GitHub.

SAMSA, this pipeline, is designed to work in conjunction with MG-RAST as the annotation engine. These scripts take the outputs from MG-RAST and help further analyze and break down the results. SAMSA2, on the other hand, is designed to run locally, either on a user's computer or on a computing cluster. It uses DIAMOND to annotate results against any custom database that the user chooses. SAMSA2 installs with the NCBI RefSeq database for organism matches and uses TheSeed's SEED Subsystems database for functional annotation, including functional hierarchy information. Take a look at .

Support

Quality

Security

License

Reuse

Support

SAMSA has a low active ecosystem.

It has 14 star(s) with 6 fork(s). There are 6 watchers for this library.

It had no major release in the last 12 months.

SAMSA has no issues reported. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of SAMSA is v1.0

Quality

SAMSA has no bugs reported.

Security

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

License

SAMSA does not have a standard license declared.

Check the repository for any license declaration and review the terms closely.

Without a license, all rights are reserved, and you cannot use the library in your applications.

Reuse

SAMSA releases are available to install and integrate.

SAMSA has no build file. You will be need to create the build yourself to build the component from source.

Installation instructions are not available. Examples and code snippets are available.

Top functions reviewed by kandi - BETA

kandi has reviewed SAMSA and discovered the below as its top functions. This is intended to give you an instant insight into SAMSA implemented functionality, and help decide if they suit your requirements.

Analyze the input file .
Find the first occurrence of a usage term .
Returns the length of a file

Get all kandi verified functions for this library.

SAMSA Key Features

No Key Features are available at this moment for SAMSA.

SAMSA Examples and Code Snippets

README for SAMSA pipeline

Python

Lines of Code : 9

License : No License

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Dependencies:
	SAMSA has several dependencies, including the programs FLASH and Trimmomatic, Python 
	version 2.7, and R, preferably RStudio.  For a complete list of Python includes and
	R packages, see the documentation.  
	
	The documentation also

Community Discussions

Trending Discussions on SAMSA

CSS is not working as expected with Angular Material

HTML, JS: Using very large data-attributes to store content?

Looping over a text collection to extract subchapters

Extract chapters from text

Matching list items to automatically update empty fields in R

Connection text span with jsPlumb

Inline SVG not scaling to parent

QUESTION

CSS is not working as expected with Angular Material

Asked 2021-Mar-18 at 04:03

I am using Angular Material mat-divider to create a table.

1.In my code where field name is Data Name some of the words disappear in the end.

2.Where field name is Data Gain the text is displayed outside of the boundary of the box.

How can I style/change CSS so that the issue can be resolved?

Here is the link to stackblitz - https://stackblitz.com/edit/angular-9-material-starter-haalp4?file=src%2Fapp%2Fapp.component.html

Here is html

...

ANSWER

Answered 2021-Mar-18 at 04:03

I think that there is a problem with tag. I changed it as . Then it works.

View -> https://stackblitz.com/edit/angular-9-material-starter-fbrr6z?file=src%2Fapp%2Fapp.component.html

Source https://stackoverflow.com/questions/66683317

QUESTION

HTML, JS: Using very large data-attributes to store content?

Asked 2020-Jan-07 at 09:59

I'm wondering if there is anything wrong with using very large/long data-attributes to change the content of a website-element?

Here's am example that uses data-attributes to store and display different language versions of a text:

...

ANSWER

Answered 2020-Jan-07 at 09:33

That's not too large. I don't think text content would do anything wrong. If you were storing megabytes of image data, that would be another case.

Source https://stackoverflow.com/questions/59625544

QUESTION

Looping over a text collection to extract subchapters

Asked 2019-May-16 at 11:50

As a continuation of my example here, I`m now confronted with the problem that I want to extract subchapters for all documents in my document collection in R for further Text Mining. This is my sample data:

...

ANSWER

Answered 2019-May-15 at 13:34

So, for me the loop gave me "subscript out of bounds" until I changed doc_corpus[i] to doc_corpus[i, ]. With that change, I do get one row in the resulting data frame.

However, it's only chapter_id "2.2 Further Fuhter." It seems to be missing "1.1 Futher."

If it's a matter of the regex, then man it would sure help if you commented what you were doing with it! :)

Feel free to comment and I'll amend my answer as needed till it's helpful. Not sure if that's how it works, but this is only my 3rd day of answering questions on SO.

Source https://stackoverflow.com/questions/56150317

QUESTION

Extract chapters from text

Asked 2019-Apr-29 at 12:36

Similar to my question here, I want to extract char sequences within a string with Regex in R. I want to extract sections from a text document, resulting in a data frame where each sub-section is treated as its own vector, for further Text Mining. This is my sample data:

...

ANSWER

Answered 2019-Apr-29 at 12:36

You may try the following approach: 1) replace all lines starting with three dot separated numbers (as these are continutations of the previous bullet points), and 2) extract the parts using the number + optional dot+number as a separator pattern while capturing the first lines and the lines to follow into separate capturing groups:

Source https://stackoverflow.com/questions/55902499

QUESTION

Matching list items to automatically update empty fields in R

Asked 2017-Oct-28 at 10:08

I have a tibble of Hanja (Chinese) characters with their matching Hangul (Korean) pronunciations.

...

ANSWER

Answered 2017-Oct-28 at 09:15

According to ?Searchable

S4 method for signature 'Searchable'

Source https://stackoverflow.com/questions/46987881

QUESTION

Connection text span with jsPlumb

Asked 2017-Oct-14 at 21:11

I use jsPlumb to display relations in a text. The basis is a text that contains annotations (color-coded). I would now like to represent relationships with arrows between the annotations. The direction of the arrow is crucial. I have now set up a code but no connections / arrows are displayed. What am I doing wrong? Thanks for your tips.

Here is my fiddle

HTML:

...

ANSWER

Answered 2017-Oct-14 at 21:11

Not sure if this is your entire problem, but I think makeSource and makeTarget take an id as the first parameter, so I'd try wrapping the whole html in a

and calling jsPlumb.makeSource("foo", {...}) and jsPlumb.makeTarget("foo", {...}). I also haven't good luck with actually getting it to show up correctly on jsfiddle.

Source https://stackoverflow.com/questions/46629297

QUESTION

Inline SVG not scaling to parent

Asked 2017-Feb-02 at 14:56

I'm trying to use svg to emulate clippath since the cross browser support is not very good but everytime I try I encounter the same problem: the svg works but it's small and doesn't scale to the element i'm applying it to. I tried everything but I can't seem to make out the error

...

ANSWER

Answered 2017-Feb-02 at 10:42

You need two things to make this work. First clipPathUnits belongs to the clipPath element, and the units used for objectBoundingBox are fractions of the bounding box. This will do what you want:

Source https://stackoverflow.com/questions/41998599

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

Vulnerabilities

No vulnerabilities reported

Install SAMSA

You can download it from GitHub.
You can use SAMSA like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.

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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