added links to papers

muellan · Jun 23, 2021 · 9b88566 · 9b88566
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diff --git a/README.md b/README.md
@@ -6,9 +6,10 @@ MetaCache is a classification system for mapping genomic sequences (short reads,
 
 For an independend comparison to other tools in terms of classification accuracy see the [LEMMI](https://lemmi.ezlab.org) benchmarking site.
 
-**MetaCache's CPU** version classifies around 60 Million reads (of length 100) per minute against all complete bacterial, viral and archaea genomes from NCBI RefSeq Release 97 running with 88 threads on a workstation with 2 Intel(R) Xeon(R) Gold 6238 CPUs.
+**MetaCache's CPU version** classifies around 60 Million reads (of length 100) per minute against all complete bacterial, viral and archaea genomes from NCBI RefSeq Release 97 running with 88 threads on a workstation with 2 Intel(R) Xeon(R) Gold 6238 CPUs.
 
 **MetaCache's [GPU version](docs/gpu_version.md)** classifies around 300 Million reads (of length 100) per minute against all complete bacterial, viral, fungal and archaea genomes from NCBI RefSeq Release 202 running on a workstation with 4 NVIDIA(R) Tesla(R) V100 GPUs (32 GB model).
+[**MetaCache-GPU**](https://arxiv.org/abs/2106.08150) will be presented at ICPP '21.
 
 
 
@@ -24,10 +25,10 @@ make
 ./metacache-build-refseq
 ```
 This will
-  * install the zlib library  
+  * install the zlib library
   * download the MetaCache source code from GitHub
   * compile MetaCache (without GPU support)
-  * download the complete bacterial, viral and archaea genomes from the latest NCBI RefSeq release (this can take some time) 
+  * download the complete bacterial, viral and archaea genomes from the latest NCBI RefSeq release (this can take some time)
   * build a classification database
 
 Once the default database is built you can classify reads:

diff --git a/docs/gpu_version.md b/docs/gpu_version.md
@@ -31,7 +31,7 @@ If you don't have enough GPU memory, you can use [database partitioning](docs/pa
   * CUDA >= 11
   * CUDA 10.2 and a self-provided version of [CUB](https://github.com/NVlabs/cub) (you also need to set the include path for CUB by supplying `INCLUDE=*your_cub_path*` when calling make)
 
-* Hashtable library [warpcore](https://github.com/sleeepyjack/warpcore) and sorting library [bb_segsort](https://github.com/Funatiq/bb_segsort). Both repositories are included as submodules and need to be checked out in addition to MetaCache itself. You can do so by calling
+* Hashtable library [warpcore (github)](https://github.com/sleeepyjack/warpcore) [(HIPC '20 paper)](https://ieeexplore.ieee.org/document/9406635) and sorting library [bb_segsort (github)](https://github.com/Funatiq/bb_segsort). Both repositories are included as submodules and need to be checked out in addition to MetaCache itself. You can do so by calling
   ```git submodule update --init --recursive```
 
 * Support for gzipped FASTA/FASTQ files requires the zlib compression library to be installed on your system.