ISOTOPE | ISOform-guided prediction of epiTOPEs in cancer | Continous Integration library

 by   comprna Python Version: Current License: GPL-3.0

kandi X-RAY | ISOTOPE Summary

kandi X-RAY | ISOTOPE Summary

ISOTOPE is a Python library typically used in Devops, Continous Integration applications. ISOTOPE has no bugs, it has no vulnerabilities, it has a Strong Copyleft License and it has low support. However ISOTOPE build file is not available. You can download it from GitHub.

The ISOTOPE pipeline identifies cancer-specific splicing-derived epitopes from short-read RNA-seq data. The pipeline operates on individual tumor samples, without the requirement of additional controls or multiple tumor samples.
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            kandi-support Support

              ISOTOPE has a low active ecosystem.
              It has 10 star(s) with 5 fork(s). There are 4 watchers for this library.
              OutlinedDot
              It had no major release in the last 6 months.
              There are 3 open issues and 2 have been closed. There are no pull requests.
              It has a neutral sentiment in the developer community.
              The latest version of ISOTOPE is current.

            kandi-Quality Quality

              ISOTOPE has no bugs reported.

            kandi-Security Security

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

            kandi-License License

              ISOTOPE is licensed under the GPL-3.0 License. This license is Strong Copyleft.
              Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

            kandi-Reuse Reuse

              ISOTOPE releases are not available. You will need to build from source code and install.
              ISOTOPE 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 ISOTOPE and discovered the below as its top functions. This is intended to give you an instant insight into ISOTOPE implemented functionality, and help decide if they suit your requirements.
            • Compute a peptide sequence
            • Check the exonization of the DNA sequence
            • Check if two exons overlap
            • Return the value of a transcript
            • Checks for mutations near the exonization
            • Return the names associated to an exon
            • Calculate the offset of a 33 line
            • Check if there are coincidences in the mut_samples
            • Generates random intronic positions
            • Returns True if any of the regions in the list overlap
            • Compute start and end coordinates from a list of values
            • Extract junctions from a gtf file
            • Given a list of exons_list returns the corresponding exons
            • Get junction list
            • Load gene ids from introns file
            • Filter neoski files based on neoski
            • Extract significant IR
            • This function is used to filter IRES
            • This function extracts the SEED SNESS events from the CHESS database
            • Compares two random DNA sequences
            • Associate gene IDs with gene ids
            • Compute coverage bed file
            • Extracts the neoski files from a gtf file
            • Extracts the junction reads from Intropolis
            • This function is used to filter IR genes
            Get all kandi verified functions for this library.

            ISOTOPE Key Features

            No Key Features are available at this moment for ISOTOPE.

            ISOTOPE Examples and Code Snippets

            No Code Snippets are available at this moment for ISOTOPE.

            Community Discussions

            QUESTION

            splitting.js results in "Uncaught TypeError: Splitting is not a function" in Rails 6
            Asked 2021-Jun-04 at 10:25

            I am using the splitting.js javascript library in my Rails 6 project. When I try to load the page I get "Uncaught TypeError: Splitting is not a function" in the console.

            I have installed the javascript library using Yarn:

            yarn add splitting

            Splitting() is called with other Javascript in scripts.js which is required in my applicaiton.js file. I have configured my application.js file in a number of ways to try to fix the issue but to no avail. Here is my current iteration of this file (entire file included in case there are other interactions to consider):

            ...

            ANSWER

            Answered 2021-Jun-04 at 10:25

            I solved this problem thanks to some help from @rossta. I needed to move all my import statement for the splitting.js module from application.js to the script.js file in which the module was being called. So I added the following to the top of scripts.js:

            Source https://stackoverflow.com/questions/67796590

            QUESTION

            ASP.NET Core MVC apply isotope filter on product page details
            Asked 2021-May-18 at 09:40

            I applied isotope filter on my .Net core project dynamically. I successfully did it but a single minor error occur. After selecting the particular category position of the product not came first. Below see my two images

            All Product

            After Filter check the position of that image not changed(its need to come first)

            My code Below Index.cshtml

            ...

            ANSWER

            Answered 2021-May-18 at 09:40

            There are two ways:

            1,Only change window onload part to:

            Source https://stackoverflow.com/questions/67560153

            QUESTION

            boostrap modal doesnt show up
            Asked 2021-Apr-21 at 04:45

            please help, i have a bootstrap template with this footer , i trying to add a modal but when i click the modal button,the modal doesnt show up , is there any plugin that have not been added in my template ?

            ...

            ANSWER

            Answered 2021-Apr-21 at 04:25

            Make sure your code contains bootstrap CSS and Bootstrap Js. Like,

            Source https://stackoverflow.com/questions/67189198

            QUESTION

            Alert button works in text editor but it wont work when deployed to static website in s3
            Asked 2021-Apr-06 at 05:54

            I am hosting a website on Amazon s3. I have a simple user form that works when I am using a text editor like Atom, it sends notifications when I submit a form through API gateway to my email. The problem is when I deeply file to s3 bucket, there are no validation or submission notifications. Notifications are enables and I tried it in different browsers.

            ...

            ANSWER

            Answered 2021-Apr-06 at 05:54

            After hours of research, all I had to do was to paste the script above my current script so that jQuery can be loaded from cache when a user visits the site.

            Source https://stackoverflow.com/questions/66962148

            QUESTION

            Subscript and Superscripts on characters vectors
            Asked 2021-Mar-21 at 21:49

            I wish to have both Subscripts and Superscripts on my character vectors, relative to the X and Y values on a plot.

            For example, the X values are the superscript and Y values are the subscript.

            Here's an example of what it should look like:

            I have tried pasting superscripts then plotting these, although it hasn't worked out like expected

            Code for plot:

            ...

            ANSWER

            Answered 2021-Mar-21 at 21:49

            We could use sprintf or paste to create the labels, then specify the label in aes and parse it in geom_label

            Source https://stackoverflow.com/questions/66737684

            QUESTION

            Localize jQuery using wp_localize_script
            Asked 2021-Mar-15 at 15:52

            I am working on localizing a custom theme I created for WordPress. I have a problem when I try to localize a jQuery file. I understand a little JS and jQuery but not enough to understand where I did a mistake.

            Here is the function :

            ...

            ANSWER

            Answered 2021-Mar-15 at 15:52

            QUESTION

            How can I filter products on multiple checkboxes?
            Asked 2021-Mar-14 at 15:29

            I am working on a product page where the user has an option to filter on different boardgames. What I want to do is to give the user an option to filter on time, category of the game, number of players and age. When the user enters a checkbox on all 4 options there should be some games recommended based on the criteria. However when I check multiple boxes I get no result, what am I doing wrong? (I have more games in my file but post small amount)

            Here's my code:

            ...

            ANSWER

            Answered 2021-Mar-14 at 09:44

            So here is the problem :

            Source https://stackoverflow.com/questions/66622478

            QUESTION

            Toggling a div based on the clicked box (multiple divs in a single page)
            Asked 2021-Mar-11 at 09:31

            I am using isotope.js to toggle different divs, the number was quite controlled 6 to 8, so I was using this function:

            ...

            ANSWER

            Answered 2021-Mar-11 at 09:31

            If (?) I understood correctly you simply wish to toggle the visibility of a number of div elements based upon the hyperlink that is clicked. Instead of using actual ID attributes, for certain tasks it is easier to use a class attribute ~ here the various IDs vizContainer1, vizContainer2 etc can be replaced with a single class attribute vizContainer which then helps us identify an entire group of elements which we wish to process. In fact the code below doesn't need to use that to identify the elements as we are interested in the parent nodes.

            By assigning the event listener externally we can uncouple the HTML and the javascript and provide a more generic event handler.

            Note that in the HTML below I added data-id=first etc to the DIV elements that are to be toggle ONLY so that the DIV elements can display something ( with CSS ) and are not actually required. The data-id=1 etc attributes ARE required for this method to work.

            The below can easily accommodate any number of DIV elements to be toggled (within reason) so I hope this helps a little.

            Source https://stackoverflow.com/questions/66578961

            QUESTION

            How to fix my header getting cut off on mobile browsers?
            Asked 2021-Mar-04 at 20:10

            I need help with fixing my header I can not find the problem! At the beginning it looks fine but when you scroll down it cuts part of it off. But when you scroll back up it goes normal. I think it is with the hamburger menu because when you click on it, it increases the cut off. Here is the link to the website. https://perfectparadox8400.000webhostapp.com/ and here is a gif of what happens!

            Link to the picture of what happens!

            I only happens when you are on a phone. I used the inspector tools to test it and I did try it on a phone to.

            Here is the header code.

            ...

            ANSWER

            Answered 2021-Mar-04 at 16:16

            You adding the on scroll shrink effect to the header

            There is two ways to solve this

            1. removing header-scrolled css or change the height of header-scrolled to according to main height mentioned in headerrr css

            Source https://stackoverflow.com/questions/66478259

            QUESTION

            Adding values form a website to a table when scraping HTML
            Asked 2021-Mar-04 at 03:06

            ANSWER

            Answered 2021-Mar-04 at 03:06

            You could grab the table without isotopes, then mimic the post request the page does if you decide to go with isotopes; then left-join the two on Name column. You will get more rows back than were in left table (no isotopes) because there are multiple Change values, but this matches with what you see in the method of viewing isotopes you describe, where there are comma separated lists of values against isotopes, within plots, rather than split out by rows.

            I go for a more selective css selector to target the specific table of interest initially, rather than indexing into lists.

            I use write_excel_csv to preserve the character encoding of headers on write out (an idea I got from @stefan).

            You can remove columns you don't want in output from joint_table before writing out (subset/select etc).

            r

            Source https://stackoverflow.com/questions/66048005

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

            Vulnerabilities

            No vulnerabilities reported

            Install ISOTOPE

            You can download it from GitHub.
            You can use ISOTOPE 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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            CLONE
          • HTTPS

            https://github.com/comprna/ISOTOPE.git

          • CLI

            gh repo clone comprna/ISOTOPE

          • sshUrl

            git@github.com:comprna/ISOTOPE.git

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