Add: Gap Filling - Peak Finder

[dyrlund]

No description provided.

[dyrlund]

The new gap filling method uses the TargetedDetectionMethod from MSDK and is a merger of the following two old methods from MZmine 2:

• Peak finder
• Same RT and m/z range gap filter

[dyrlund]

@tomas-pluskal In MZmine 2 there is a RT correction option. In the code the following is stated:
Fill the gaps of a random sample using all the other samples...

Isn't the general idea behind the old correction the same as what we have now added as Use rows RT range and Use rows m/z range? At least I don't see a reason to keep this as a parameter in the new method. Do you have any objections against removing it?

[tomas-pluskal]

I think this option was added by @SandraCastilloPriego
I have actually never tried using it, so I have no problem with removing it.
Sandra, do you have any comments?

[SandraCastilloPriego]

I don't remember about it. No problem if it is not useful.

On Wed, 24 Feb 2016 17:03 Tomáš Pluskal [email protected] wrote:

I think this option was added by @SandraCastilloPriego
https://github.com/SandraCastilloPriego
I have actually never tried using it, so I have no problem with removing
it.
Sandra, do you have any comments?

—
Reply to this email directly or view it on GitHub
mzmine/mzmine#32 (comment).

[dyrlund]

The initial version of the gap filling was done in MSDK #117.

However, the current implementation of the method is slow because the TargetedDetectionMethod is called multiple times for each sample. This should be optimized.