Help: Gerbil Configuration

[taranglute]

Hi

We are working on analysis of Bioinformatics tools (related to Kmer counting) and Gerbil is one of them. We have gone through readme file and it is very helpful. As we are doing analysis so we want to be very sure about details. It would be great if you help us validating below details.

Data structure and Sorting Algo:
Array/Hashing

Approach:
Two disk based, modified minimum sub-string partitioning (Signature), GPU implementation

The limit of k-size : less than 521
Supports online k-mer frequency retrieval : No
Supports compressed file processing : Yes

Thanks
Tarang

[srechner]

Hi,

thanks for your interest in our work.
It seems all of your details are correct.

Steffen