OpgenMap2Arachne

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OpgenMap2Arachne is a module that converts optical maps from OpGen format to Arachne binary format, for use with Arachne modules such as OptiDetailedAligns.

Contents

Input parameters

 string        IN     absolute path to the optical map file
 string        OUT    absolute path to the output map file (recommended: RUN/opticalMap/optimap.simple)

File formats

Input

chr01
BsiWI  B  17.48  2.74  2.54  2.39  19.73  17.35  9.58  9.54  11.33  28.17...

Output

chr01
17480
2740
2540
2390
19730
17350
9580
9540
11330
28170

Naming convention

NOTE: please check the consistency of the linkage group naming in the map, e.g. it should always be "chr01", "chr02" etc., and NOT "chr01" and "chr2"!

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