Universal-mer download for Windows

This is the Windows app named Universal-mer whose latest release can be downloaded as Universal-MerV1.0.0.zip. It can be run online in the free hosting provider OnWorks for workstations.

 
 

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- 7. Download Wine from your Linux distributions software repositories. Once installed, you can then double-click the app to run them with Wine. You can also try PlayOnLinux, a fancy interface over Wine that will help you install popular Windows programs and games.

Wine is a way to run Windows software on Linux, but with no Windows required. Wine is an open-source Windows compatibility layer that can run Windows programs directly on any Linux desktop. Essentially, Wine is trying to re-implement enough of Windows from scratch so that it can run all those Windows applications without actually needing Windows.

SCREENSHOTS:


Universal-mer


DESCRIPTION:

Universal-Mer is a k-mer counting tool for all possible size of k at once. More than typical k-mer counting tools, the program can summarize the exact counting result of 1-mers to l-mers at once where l = the length of longest repeated substring in the input sequence where now the maximum length is set to 100000-mers. The program can report exactly the number of all repeat (freq>1) and unique(freq = 1) mers , and the number of all possible substrings of sequences without cutting off any low frequency mers.

Input files can be text or fasta format.The input alphabet now is only {A, C, G, T}. The input text files will be concerned as fasta format without description line. After counting and building the database of all possible length k of k-mer completed, User can choose in the menu any size of k to count a histogram, dump k-mers, query a substring, and summarize all possible k.



Features

  • Summarize distinct repeated and unique 1-mers to l-mers where l = longest length of repeats
  • Count a histogram of k-mers where 1=k= the length of an input sequence
  • Count a histogram of canonical k-mers where 1=k= the length of an input sequence
  • Dump k-mers where 1=k= the length of an input sequence
  • Dump canonical k-mers where 1=k= the length of an input sequence
  • Query a k-mer any size of k where k=200000 in the input sequences.
  • Find the longest repeated substring of an input sequence.

User interface

Console/Terminal, Command-line


Programming Language

C


Categories

Bio-Informatics

This is an application that can also be fetched from https://sourceforge.net/projects/universal-mer/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.



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