Comments (2)
It does not seem that the authors have published that information, yet I believe that their have a manuscript in preparation. The pipeline is made of many steps, one of them is the Bcalm software, that has significant, yet sublinear, parallel speed-up. I do not know about the other steps.
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It is difficult to answer this question as it completely depends on the size of the datasets and how difficult they are to assemble - i.e., a complex genome structure with intermediate-level heterozygosity will yield highly fragmented DBG on which read mapping will take much longer than a genome of the same size for which the DBG has larger unitigs. Details benchmarks will be included in the BWISE publication.
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Related Issues (18)
- Parameter for multi libraries HOT 1
- Checking dependencies?
- Unexpected error during graph construction: <class 'FileNotFoundError'> HOT 1
- Create a "dev" branch separate from the "stable" branch
- Add option to crush isolated bubbles HOT 2
- Haplo contigs not generated
- Test fails at Graph3: Construction
- Please add a copy of the AGPL to the source code
- One or several files could not be generated
- Problem with binary compilation of BWISE. HOT 4
- ZeroDivisionError: division by zero HOT 8
- What is the final file ? HOT 1
- BWISE stops working properly when k=220
- replace "integral information" by something like "fully uses paired-end information"
- Default output directory should be "." but is ".." instead, leading to a crash HOT 1
- add information about the output in the README
- Unable to write tipped_out.unitigs.fa file HOT 5
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