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ruanjue / wtdbg2

Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
GNU General Public License v3.0
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About the variable "num_index" #100

Closed CleverFat closed 5 years ago

CleverFat commented 5 years ago

Greetings! When I was assembling seqs using wtdbg, I found that changing the value of "num_index" can reduce the memory usage of this software. However, after the program successfully terminated, I noticed that the TOT and N50 are much different from the original results. So I have two questions.

  1. What does this variable do in wtdbg?
  2. If I change this variable, will the result be correct? Thank you!
ruanjue commented 5 years ago

RE 1: Please see the --kbm-parts release v2.4 (https://github.com/ruanjue/wtdbg2/releases/tag/v2.4). RE 2: Please keep it as itself, unless you know exactly what's it do.

CleverFat commented 5 years ago

Thanks for your time ! I only changed the value to 2 and did nothing else, but the TOT and N50 changed greatly, is that normal?

ruanjue commented 5 years ago

The assembly can be evaluated when existing reference sequences. If you doesn't know what is correct, please keep it as itself.

CleverFat commented 5 years ago

Alright, thank you !