-
Notifications
You must be signed in to change notification settings - Fork 0
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Initial readme commit.
- Loading branch information
Showing
1 changed file
with
46 additions
and
0 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,46 @@ | ||
# versalignLib | ||
|
||
Author: [Tobias Neumann](mailto:tobias.neumann.at@gmail.com) | ||
|
||
Programming language: C/C++11 | ||
|
||
Technologies: [SSE2](https://en.wikipedia.org/wiki/SSE2), [AVX2](https://en.wikipedia.org/wiki/Advanced_Vector_Extensions), [OpenCL](https://www.khronos.org/opencl/), [OpenMP](www.openmp.org) | ||
|
||
What is it? | ||
----------- | ||
|
||
**versalignLib** is a set of libraries of implementations of the sequence alignment algorithms | ||
[Smith-Waterman](https://en.wikipedia.org/wiki/Smith%E2%80%93Waterman_algorithm) | ||
and [Needleman-Wunsch](https://en.wikipedia.org/wiki/Needleman%E2%80%93Wunsch_algorithm). | ||
|
||
Each library contains implementations utilizing a different | ||
parallelization technology (OpenMP, SSE2, AVX2, OpenCL). They are provided as [shared objects](https://en.wikipedia.org/wiki/Dynamic_loading) | ||
and can be dynamically loaded depending on available resources and can be benchmarked to one another. | ||
|
||
System requirements | ||
------------------- | ||
|
||
<dl> | ||
<table> | ||
<tbody> | ||
<tr> | ||
<td><b>CPU:</b></td> | ||
<td>64 bit SSE2 enabled, (optional) AVX2 enabled</td> | ||
</tr> | ||
<tr> | ||
<td><b>RAM:</b></td> | ||
<td>Tested on regular systems with minimum 4 GB RAM</td> | ||
</tr> | ||
<tr> | ||
<td><b>OS:</b></td> | ||
<td>Linux (Ubuntu Server 16.04, Debian 7.7), Mac OSX (10.11) </td> | ||
</tr> | ||
<tr> | ||
<td><b>Software:</b></td> | ||
<td><a href="https://cmake.org/"><i>cmake</i></a></td> | ||
</tr> | ||
</tbody> | ||
</table> | ||
</dl> | ||
|
||
|