Skip to content

Commit 0eaf428

Browse files
Update README.md
1 parent a95a545 commit 0eaf428

File tree

1 file changed

+17
-1
lines changed

1 file changed

+17
-1
lines changed

README.md

Lines changed: 17 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -18,6 +18,22 @@ With a goal to build a performant, cost effective and productive platform, we ar
1818
<img src="https://github.com/IntelLabs/Open-Omics-Acceleration-Framework/blob/main/images/Open-Omics-Acceleration-Framework-v2.0.JPG" height="300"/a></br>
1919
</p>
2020

21+
With a goal of providing a one-stop platform, this framework brings our following repositories for digital biology under one umbrella:
22+
* Architecture efficient versions of several popular applications as part of our toolkit layer
23+
24+
| Original Application | Our architecure-efficient version |
25+
| --- | --- |
26+
| Short read sequence mapping tool, [BWA-MEM](https://github.com/lh3/bwa) | [BWA-MEM2](https://github.com/bwa-mem2/bwa-mem2) |
27+
| long read sequence mapping tool, [minimap2](https://github.com/lh3/minimap2) | [mm2-fast](https://github.com/bwa-mem2/mm2-fast) |
28+
| Deep learning based variant calling tool, [DeepVariant](https://github.com/google/deepvariant) | [Open-Omics-DeepVariant](https://github.com/IntelLabs/open-omics-deepvariant) |
29+
| Deep learning based tool for protein structure prediction, [AlphaFold2](https://github.com/google-deepmind/alphafold) | [Open-Omics-AlphaFold](https://github.com/IntelLabs/open-omics-alphafold) |
30+
| Tool for biological sequence analysis using profile HMMs, [HMMER](https://github.com/EddyRivasLab/hmmer) | [IntelLabs HMMER](https://github.com/IntelLabs/hmmer) |
31+
| Tool for HMM based sensitive protein sequence searching, [HH-suite](https://github.com/soedinglab/hh-suite) | [IntelLabs HH-suite](https://github.com/IntelLabs/hh-suite) |
32+
33+
* [Trans-Omics Acceleration Library](https://github.com/IntelLabs/Trans-Omics-Acceleration-Library): As part of our building blocks layer, this is a library containing architecture-efficient versions of key algorithms and data structures used for Omics analysis.
34+
35+
In addition, we also use several existing AI libraries: oneDNN, oneDAL, oneCCL, Katana Graph, LIBXSMM.
36+
2137
# Getting Started
2238
```sh
2339
# Download release
@@ -34,7 +50,7 @@ cd pipelines
3450
# Go to the directory with toolkit
3551
cd applications
3652

37-
# Go to the directory with biology building blocks
53+
# Go to the directory with biology building blocks to access Trans-Omics Acceleration Library
3854
cd lib/tal
3955

4056
```

0 commit comments

Comments
 (0)