tdg12 | This program

 by   tamuri Java Version: Current License: Apache-2.0

kandi X-RAY | tdg12 Summary

kandi X-RAY | tdg12 Summary

tdg12 is a Java library. tdg12 has no bugs, it has no vulnerabilities, it has a Permissive License and it has low support. However tdg12 build file is not available. You can download it from GitHub.

This document describes how to use the TdG12 site-wise mutation-selection model ('swMutSel0') to estimate the distribution of selection coefficients (or 'fitness effects') from an alignment of protein coding sequences.
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            kandi-support Support

              tdg12 has a low active ecosystem.
              It has 2 star(s) with 0 fork(s). There are 2 watchers for this library.
              OutlinedDot
              It had no major release in the last 6 months.
              tdg12 has no issues reported. There are no pull requests.
              It has a neutral sentiment in the developer community.
              The latest version of tdg12 is current.

            kandi-Quality Quality

              tdg12 has 0 bugs and 0 code smells.

            kandi-Security Security

              tdg12 has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.
              tdg12 code analysis shows 0 unresolved vulnerabilities.
              There are 0 security hotspots that need review.

            kandi-License License

              tdg12 is licensed under the Apache-2.0 License. This license is Permissive.
              Permissive licenses have the least restrictions, and you can use them in most projects.

            kandi-Reuse Reuse

              tdg12 releases are not available. You will need to build from source code and install.
              tdg12 has no build file. You will be need to create the build yourself to build the component from source.
              Installation instructions, examples and code snippets are available.
              It has 2723 lines of code, 174 functions and 51 files.
              It has medium code complexity. Code complexity directly impacts maintainability of the code.

            Top functions reviewed by kandi - BETA

            kandi has reviewed tdg12 and discovered the below as its top functions. This is intended to give you an instant insight into tdg12 implemented functionality, and help decide if they suit your requirements.
            • Performs the homogeneous model
            • Gets the initial fitness parameters
            • Performs the optimisation
            • Returns a list of all amino acids in a list of codons
            • Starts a slave
            • Write the hostname file
            • Returns a free port
            • Calculate the neutral mutation rate
            • Determines if a transition is a transition by state
            • Compare two values
            • Computes the homogeneous model
            • Converts a comma - separated string into a double array
            • Converts a comma - separated string into an array of characters
            • Entry point
            • Recompute eigenvalues of a matrix
            • Creates the error matrix for the coding
            • Return the full Q matrix for the CDNA coding
            • Handle UPdGroups query
            • Returns the full selection matrix for all amino acids
            • Starts the AlignmentSimulator
            • Convert a string to aPrioreter
            • Main function
            • Entry point for the fitnesses
            • Fill the tip conditionals
            • Prints the 2D array to standard out
            • Test program
            Get all kandi verified functions for this library.

            tdg12 Key Features

            No Key Features are available at this moment for tdg12.

            tdg12 Examples and Code Snippets

            No Code Snippets are available at this moment for tdg12.

            Community Discussions

            No Community Discussions are available at this moment for tdg12.Refer to stack overflow page for discussions.

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

            Vulnerabilities

            No vulnerabilities reported

            Install tdg12

            You can download the executable files for the program from http://mathbio.nimr.mrc.ac.uk/. Download the tdg12.zip file and extract the contents. The download contains the files required for this tutorial and tdg12.jar, which is the Java binary file for the program.

            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
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            https://github.com/tamuri/tdg12.git

          • CLI

            gh repo clone tamuri/tdg12

          • sshUrl

            git@github.com:tamuri/tdg12.git

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