guppy-software
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guppy-software [2021/07/08 08:11] – [Usage] aorth | guppy-software [2022/05/24 09:59] – aorth | ||
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===== Information ===== | ===== Information ===== | ||
- | * Version: | + | * Version: |
* Added: July, 2021 | * Added: July, 2021 | ||
- | * Models: / | + | |
+ | | ||
* Link: https:// | * Link: https:// | ||
+ | * Version check: https:// | ||
===== Usage ===== | ===== Usage ===== | ||
- | See versions | + | See versions that are available: |
< | < | ||
Load one version into your environment and run it: | Load one version into your environment and run it: | ||
- | < | + | < |
- | //Note: guppy ships with some pre-configured models that set many basecalling parameters to sensible defaults. Please consult: / | + | //Note: guppy ships with some pre-configured models that set many basecalling parameters to sensible defaults. Please consult: / |
// | // | ||
===== Installation ====== | ===== Installation ====== | ||
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< | < | ||
- | $ wget https:// | + | $ wget https:// |
- | $ tar xf ont-guppy_5.0.11_linux64.tar.gz | + | $ sudo cp -r ont-guppy / |
- | $ sudo mkdir -p / | + | |
- | $ sudo cp -r ont-guppy / | + | |
Run some test data using fourteen CPUs: | Run some test data using fourteen CPUs: | ||
- | < | + | < |
- | $ mkdir -p / | + | $ cd / |
$ wget https:// | $ wget https:// | ||
- | $ tar xf Data_Group1.tar.gz | + | $ tar xf Data_Group1.tar.gz |
- | $ guppy_basecaller --compress_fastq -i / | + | $ guppy_basecaller --compress_fastq -i data/ |
... | ... | ||
- | Caller time: 208271 | + | Caller time: 3281435 |
Run some test data using a GPU (currently only on compute06): | Run some test data using a GPU (currently only on compute06): | ||
- | < | + | < |
... | ... | ||
Caller time: 2994 ms, Samples called: 27619692, samples/s: 9.22501e+06</ | Caller time: 2994 ms, Samples called: 27619692, samples/s: 9.22501e+06</ |
guppy-software.txt · Last modified: 2023/12/06 06:42 by aorth