salmon | 🐟 🍣 🍱 Highly-accurate & wicked fast transcript | Genomics library

 by   COMBINE-lab C++ Version: v1.10.0 License: GPL-3.0

kandi X-RAY | salmon Summary

kandi X-RAY | salmon Summary

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

You can chat with the Salmon developers and other users via Gitter (Note: Gitter is much less frequently monitored than GitHub, so if you have an important problem or question, please consider opening an issue here on GitHub)!. [Join the chat at
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              salmon has a low active ecosystem.
              It has 621 star(s) with 147 fork(s). There are 39 watchers for this library.
              OutlinedDot
              It had no major release in the last 12 months.
              There are 280 open issues and 446 have been closed. On average issues are closed in 112 days. There are 3 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of salmon is v1.10.0

            kandi-Quality Quality

              salmon has no bugs reported.

            kandi-Security Security

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

            kandi-License License

              salmon 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

              salmon releases are available to install and integrate.

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            salmon Key Features

            No Key Features are available at this moment for salmon.

            salmon Examples and Code Snippets

            No Code Snippets are available at this moment for salmon.

            Community Discussions

            QUESTION

            SConstruct 101—moving on from Makefiles
            Asked 2021-Jun-14 at 17:43

            Like make, scons has a large number of predefined variables and rules. (Try scons | wc on an SConstruct containing env = Environment(); print(env.Dump()) to see how extended the set is.)

            But suppose we aren't after the wizardry of presets but rather want to do something a lot more primitive—simulating launching a few instructions from the (bash, etc) command line?

            Also suppose we're quite happy with the default Decider('MD5'). What is the translation of the one-souce-one-target:

            ...

            ANSWER

            Answered 2021-Jun-14 at 17:43

            All the answers you're looking for are in the users guide (and manpage)

            Firstly, assuming you don't want to scan the input files to add included files specified in the input files, you can use Commmand() (See info here: https://scons.org/doc/production/HTML/scons-user.html#chap-builders-commands)

            Then you'll want an alias to specify an a non file command line target (See here:https://scons.org/doc/production/HTML/scons-user.html#chap-alias)

            Putting those two together yields

            Source https://stackoverflow.com/questions/67973195

            QUESTION

            snakemake - Missing input files for rule salmon_quant: error
            Asked 2021-Jun-10 at 20:38

            I am trying to process bulk RNA-seq data using salmon through snakemake in the conda/mamba environment.

            I am receiving the following error when running snakemake:

            ...

            ANSWER

            Answered 2021-Jun-10 at 20:38

            I think the Snakefile is ok, SRR3350597_GSM2112330_RA_hip_3_Homo_sapiens_RNA-Seq_1.fastq.gz is simply missing. See the ls output of yours, that file is not in it.

            Source https://stackoverflow.com/questions/67927314

            QUESTION

            call a resize event - that is not reacting on scroll?
            Asked 2021-Jun-02 at 14:07

            I want a div to have the min-height of the viewport. Therefor I use Javascript to detect the window height and set a style property (because of mobile browser height behavior). https://css-tricks.com/the-trick-to-viewport-units-on-mobile/

            I want to resize the height in case of orientationchange or if the browser window changes. So, I created a resize event.

            And here is my problem - the resize event also gets fired when you scroll the page. So there is this ugly jump in the content on scrolling down.

            Does anyone have a solution for this problem?! It bothers me so often :(

            Edit - here is a simple example:

            ...

            ANSWER

            Answered 2021-Jun-02 at 14:07

            It is not that a resize event is being called on every scroll, but there is actually a resize on the user scrolling at first on some mobiles, or subsequently when they go back to the first page top - it's the tabs at the top of the browser window that come and go - the reason 100vh doesn't 'work' as one would expect. This was done in the mobile browsers to stop a jump effect when doing 'ordinary' scrolling, but of course in this case the layout is altered depending on actual screen size usable.

            One slight mitigation is to make the height change transition so it's less of a jerky experience. It's still feeling a bit different from a normal scroll without height change, but is less of an annoyance I think.

            (Note, the phenomenon isn't seen on an SO snippet, run this code in your browser on an actual device).

            Source https://stackoverflow.com/questions/67784475

            QUESTION

            Transferring JavaScript objects to HTML table
            Asked 2021-May-31 at 07:11

            The object within an object contains variables such as "name", "amount", "amountType", and "cal". The strings on those variables should be transferred through loop as several row in the given HTML table. Each variable should be on its own cell.

            I already made one row and made 4 cell for the name, amount, amount type, and calorie columns. Then, I tried to transfer the objects elements inside the cell using the index of the object.

            ...

            ANSWER

            Answered 2021-May-31 at 07:11

            You're treating the mealObj as an array while it's an object and also you're not looping, so your code only runs once.

            Below you can find a code that works for the first Menu (Steak). You might need to account for multiple meals by creating multiple tables.

            Source https://stackoverflow.com/questions/67768563

            QUESTION

            Taking an object's element and turning it into a button's innerHTML
            Asked 2021-May-31 at 04:03

            On the function "createIngrList", it should take all the ingredient names, such as "Butter", "Beef", "Onion", etc., and turn it into buttons. So each button should have a text with the name of an ingredient written on it. As of now, there is just 4 buttons with "undefined" written on it. If possible, all the repeating ingredients such as "Onion" should not be made into button twice. Once is enough.

            ...

            ANSWER

            Answered 2021-May-31 at 00:33

            I think this may be what you are looking for... Though you mention not parsing ingredients that are listed twice, though each food, only has an ingredient listed in your object once. Correct me if I am wrong I will refine answer.

            You can use for/in loops to get the nested ingredients and their foods. Then use the obj.name to get the name. Through the first for/in loop the key -> i will be the name of the food, then use the second key along witht he first to get the actual .name => obj[i][k].name this will give you the ingredient name.

            I also created a couple of divs to palce the food and its buttons wrapped in divs for styling, etc...

            You can use conditionals to filter by food if you want to only show a certain type of foods ingredients as buttons.

            NOTE: your obj key for the first value is uppercase, this will cause issues when parsing obj[index][key].name, likely that is just a typo...

            Source https://stackoverflow.com/questions/67766627

            QUESTION

            Mongoose get all documents matching array intersection
            Asked 2021-May-29 at 08:09

            By array intersection I mean, the inventory has a lot more elements than each document ingredients array, and the result I want to get from the query is all documents which all array elements are contained within the inventory. $all will get me zero results since the inventory has more elements than can be found in ingredients even if all ingredients are found within the inventory,

            I have thousands of docs that have an array field of strings

            ...

            ANSWER

            Answered 2021-May-29 at 06:48

            You can try aggregation operator in mquery using $expr expression condition,

            • first of all you can join the array of string by | order symbol and make a string, and use it in $regex search,
            • $filter to iterate loop of ingredients
            • $regexMatch to match element has any matching word
            • $size to get the total size of filtered elements
            • $eq to match filtered result and actual ingredients is equal

            Source https://stackoverflow.com/questions/67742830

            QUESTION

            XSLT generic solution to get hierarchical html table out of XML
            Asked 2021-May-28 at 21:01

            The xml format is a good way to store any hierarchical data. As an example we are using the classification of animals

            ...

            ANSWER

            Answered 2021-May-28 at 10:32

            What we can see in the html table, is that the first row holds a cell for every hierarchy level which is represented as a column. This means it has to be generated a row with all elements from the highest till the deepest hierarchy level. The element on the deepest hierarchy level is the one without further descendants. To get these we can use this xpath expression

            Source https://stackoverflow.com/questions/67737281

            QUESTION

            How to create a table automatically? Using html+angular+typescript
            Asked 2021-May-28 at 09:59

            I'm trying to create a table automatically using Angular and HTML. I take data from a mysql database using PHP, and Angular can see them thanks to JSON.

            In admin.component.html file I create the table using *ngFor in this way:

            ...

            ANSWER

            Answered 2021-May-28 at 09:59

            Since *ngFor is placed on the td tag it ends up creating multiple td tags, one for each element within element.Ingredienti and element.Allergeni. What you want is to display the whole element.Ingredienti array within a single td. So generating some other tag within a single td is the way to go.

            Something like this should solve your issue

            Source https://stackoverflow.com/questions/67736654

            QUESTION

            Navigation-bar width responsiveness doesn't seem to work
            Asked 2021-May-26 at 19:23

            I've been trying to set up my nav-bar for mobile devices but the navigation bar doesn't seem to act accordingly to the @media queries provided.

            ...

            ANSWER

            Answered 2021-May-26 at 19:23

            It's not a great practice to define widths in conjunction with flex-box. The problem is that it fights with flex box's ability to manage the space.

            Instead, you should use flex-basis or the flex (flex-grow, flex-shrink, flex-basis) shorthand to define sizing.

            So in your case use

            Source https://stackoverflow.com/questions/67710907

            QUESTION

            How to show a div when hovering another div using CSS?
            Asked 2021-May-25 at 15:10

            I have a div that contains an iframe element that shows a video (song), and another div that shows the lyrics of that song. the div that shows the lyrics is set with display: none;. now, i want to show this div (lyrics) when the div that contains the iframe element with the video is hovered. (I'm not allowed to use Javascript, only CSS).

            What i have:

            karaoke.html:

            ...

            ANSWER

            Answered 2021-May-25 at 15:10

            Instead of using .karaoke:hover .lyrics-w { display: block; } use this

            Source https://stackoverflow.com/questions/67690582

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

            Vulnerabilities

            No vulnerabilities reported

            Install salmon

            You can download it from GitHub.

            Support

            The documentation for Salmon is available on [ReadTheDocs](http://readthedocs.org), check it out [here](http://salmon.readthedocs.org). Salmon is, and will continue to be, [freely and actively supported on a best-effort basis](https://oceangenomics.com/about/#open). If you need industrial-grade technical support, please consider the options at [oceangenomics.com/contact](http://oceangenomics.com/contact).
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