Mapping algorithms - Githubissues

rivas-lab / nanopore

Tools for analysis of long-read sequencing data.

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Mapping algorithms #24

Open yk-tanigawa opened 7 years ago

yk-tanigawa commented 7 years ago

Would like to take a benchmark of different mapping algorithms

bwa mem
GraphMap
- https://github.com/isovic/graphmap
canu
- https://github.com/marbl/canu
miniAlign
- https://github.com/ocxtal/minialign
DALGNER
- https://github.com/thegenemyers/DALIGNER
- This is for de novo assembly, but list it here because it's famous

ToDo

prepare benchmark data set (sample from Nanopore consortium data with read length filter)
install softwares
take benchmark

yk-tanigawa commented 7 years ago

Installed graphmap, canu, minialign