galaxyproject / galaxyproject/tpv-shared-database
jellyfish kmer counter memory estimation
Open
- Dominant language
- No language data
- Stars
- 12
- Forks
- 20
- PR merge metrics
- No merged PRs in 30d
Description
It would be nice if we can convert the memory estimation of jellyfish to python.
https://github.com/gmarcais/Jellyfish/blob/43b1ab27abdb8c9399c386cc998bb9fd33648412/include/jellyfish/large_hash_array.hpp#L97
`jellyfish mem` is giving already a nice estimation.
```
jellyfish mem --mer-len 27 --size 100M '/data/dnb09/galaxy_db/files/c/0/2/dataset_c02f0b7f-79d1-498d-ba17-c39374511657.dat'
149933428608 (139G)
```
the M after --size is Million, G for Billion, k for kilo
Contributor guide
No contributing guide indexed for this repository
Assessment
This issue has not been assessed yet.